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This page was generated on 2025-10-18 12:04 -0400 (Sat, 18 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4887
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4677
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4622
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4632
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 209/2353HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-17 13:45 -0400 (Fri, 17 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on lconway

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-17 20:31:47 -0400 (Fri, 17 Oct 2025)
EndedAt: 2025-10-17 20:33:19 -0400 (Fri, 17 Oct 2025)
EllapsedTime: 91.5 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.15.1’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-17 20:32:50.511][biodb::testContext]
biodb.INFO [2025-10-17 20:32:50.515][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:32:50.517][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-17 20:32:50.519][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:32:50.520][biodb::testContext]
biodb.INFO [2025-10-17 20:32:50.529][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:32:50.532][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 20:32:50.543][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:32:50.544][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 20:32:50.547][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 20:32:50.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.554][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 20:32:50.582][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 20:32:50.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.588][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 20:32:50.589][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 20:32:50.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.595][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 20:32:50.596][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 20:32:50.598][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 20:32:50.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.603][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 20:32:50.604][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 20:32:50.606][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 20:32:50.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.611][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 20:32:50.613][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 20:32:50.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.618][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 20:32:50.619][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 20:32:50.621][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 20:32:50.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.626][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 20:32:50.627][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 20:32:50.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.632][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 20:32:50.646][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 20:32:50.648][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 20:32:50.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.653][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:32:50.654][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 20:32:50.656][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 20:32:50.657][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 20:32:50.658][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 20:32:50.660][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 20:32:50.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.665][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 20:32:50.667][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 20:32:50.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.672][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 20:32:50.673][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 20:32:50.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.678][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 20:32:50.680][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 20:32:50.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.685][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 20:32:50.686][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 20:32:50.687][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 20:32:50.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.692][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:32:50.694][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 20:32:50.721][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 20:32:50.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.727][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 20:32:50.729][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 20:32:50.731][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 20:32:50.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.740][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 20:32:50.789][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.812][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-17 20:32:50.814][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.815][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:32:50.817][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.818][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.820][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.821][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.823][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:32:50.824][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:32:50.826][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.827][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 20:32:50.828][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:32:50.830][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.831][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.832][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:32:50.832][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:32:50.832][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:32:50.832][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:32:50.832][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:32:50.834][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:32:50.835][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.836][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.838][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:32:50.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.842][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.843][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.845][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:32:50.846][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:32:50.847][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.848][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.850][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 20:32:50.852][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.854][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:32:50.855][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.856][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:32:50.858][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.859][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.861][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.862][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.863][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:32:50.865][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:32:50.866][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.867][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 20:32:50.869][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:32:50.870][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.872][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.873][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:32:50.873][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:32:50.873][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:32:50.873][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:32:50.873][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:32:50.875][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:32:50.876][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.879][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:32:50.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.882][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.884][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.885][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:32:50.886][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:32:50.888][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.889][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.890][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 20:32:50.893][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.894][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-17 20:32:50.896][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.897][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:32:50.898][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.900][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.901][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.902][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.903][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:32:50.904][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:32:50.906][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.907][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 20:32:50.909][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:32:50.917][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.918][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.919][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.921][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:32:50.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.923][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.924][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:32:50.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.928][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.930][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.931][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:32:50.932][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:32:50.934][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.935][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.937][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 20:32:50.939][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.941][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:32:50.942][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.944][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:32:50.945][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.947][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.948][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.949][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.950][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:32:50.952][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:32:50.953][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.954][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 20:32:50.955][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:32:50.957][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.958][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:50.960][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.961][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:32:50.962][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.964][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.965][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:32:50.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:50.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:50.968][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:32:50.970][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.971][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:32:50.972][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:32:50.974][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:50.975][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:32:50.980][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:32:50.981][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:50.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:50.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:50.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:50.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:50.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:50.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:50.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:50.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:50.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.081][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 20:32:51.087][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 20:32:51.089][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 20:32:51.092][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 20:32:51.094][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:32:51.096][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 20:32:51.098][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 20:32:51.100][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 20:32:51.102][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 20:32:51.104][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 20:32:51.106][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:32:51.108][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 20:32:51.110][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 20:32:51.111][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 20:32:51.113][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 20:32:51.115][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 20:32:51.117][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 20:32:51.119][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 20:32:51.121][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:32:51.123][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 20:32:51.125][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 20:32:51.127][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 20:32:51.130][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 20:32:51.132][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 20:32:51.134][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 20:32:51.136][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 20:32:51.138][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 20:32:51.140][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 20:32:51.142][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 20:32:51.144][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 20:32:51.145][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 20:32:51.148][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 20:32:51.150][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 20:32:51.151][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 20:32:51.161][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 20:32:51.163][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 20:32:51.165][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 20:32:51.168][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 20:32:51.170][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 20:32:51.171][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 20:32:51.173][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 20:32:51.175][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 20:32:51.177][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 20:32:51.179][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 20:32:51.181][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 20:32:51.182][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 20:32:51.184][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 20:32:51.186][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 20:32:51.188][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 20:32:51.190][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 20:32:51.192][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 20:32:51.194][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 20:32:51.195][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 20:32:51.197][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 20:32:51.199][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 20:32:51.200][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 20:32:51.202][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 20:32:51.203][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 20:32:51.205][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 20:32:51.207][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 20:32:51.209][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 20:32:51.211][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 20:32:51.212][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 20:32:51.215][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 20:32:51.216][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 20:32:51.218][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 20:32:51.220][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:32:51.222][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:32:51.224][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 20:32:51.226][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 20:32:51.228][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 20:32:51.230][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 20:32:51.232][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 20:32:51.234][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 20:32:51.236][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 20:32:51.238][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 20:32:51.240][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 20:32:51.241][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 20:32:51.243][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 20:32:51.245][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 20:32:51.247][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 20:32:51.249][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 20:32:51.251][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 20:32:51.260][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 20:32:51.262][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:32:51.267][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:32:51.269][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.271][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:32:51.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:51.421][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 20:32:51.435][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 20:32:51.438][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:51.439][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 20:32:51.441][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:51.442][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:32:51.444][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:51.445][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:32:51.447][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:51.448][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 20:32:51.449][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 20:32:51.450][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:32:51.452][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:51.453][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 20:32:51.454][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 20:32:51.456][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 20:32:51.458][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 20:32:51.459][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:32:51.459][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:32:51.459][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:32:51.461][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 20:32:51.462][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:51.463][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:51.464][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:32:51.466][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:32:51.467][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:32:51.468][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:32:51.469][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 20:32:51.469][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 20:32:51.471][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:32:51.472][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:32:51.473][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 20:32:51.475][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 20:32:51.475][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 20:32:51.484][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:32:51.487][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:32:51.489][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 20:32:51.491][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:32:51.493][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:32:51.495][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:32:51.530][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 20:32:51.554][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 20:32:51.566][biodb::testThat]
biodb.INFO [2025-10-17 20:32:51.567][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-17 20:32:51.569][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:51.570][biodb::testThat]
biodb.TRACE[2025-10-17 20:32:51.577][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-17 20:32:51.579][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:51.584][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:51.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:51.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:51.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:51.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:51.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:51.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:51.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:51.632][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.637][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.677][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:51.678][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:51.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.681][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.719][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:51.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:51.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.726][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:51.728][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:51.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:51.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:51.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.738][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:51.740][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:51.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.742][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.744][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:51.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:51.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.750][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.752][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.762][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:51.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:51.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.765][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.767][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:51.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:51.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.773][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:51.774][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:51.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.777][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.778][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:51.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:51.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.784][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:51.786][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:51.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:51.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:51.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.796][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:51.798][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:51.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.800][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:51.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:51.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.807][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:51.809][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:51.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.811][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.813][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:51.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:51.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.819][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:51.820][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:51.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.822][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.824][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:51.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:51.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:51.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:51.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:51.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:51.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:51.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:51.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:51.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:51.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:51.938][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-17 20:32:51.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:51.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:51.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:51.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:51.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:51.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:51.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:51.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.011][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 20:32:52.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 20:32:52.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.017][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 20:32:52.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 20:32:52.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.022][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-17 20:32:52.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-17 20:32:52.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.081][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-17 20:32:52.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-17 20:32:52.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.201][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.202][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.204][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.240][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.241][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:52.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:52.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:52.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:52.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:52.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:52.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:52.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.288][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:52.289][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:52.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:52.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:52.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.310][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:52.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:52.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.316][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:52.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:52.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.320][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:52.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:52.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.324][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:52.325][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:52.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.328][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.329][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:52.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:52.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.365][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.406][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.407][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.410][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.429][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:52.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:52.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.435][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:52.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:52.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.441][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:52.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:52.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.445][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:52.447][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:52.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.449][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.451][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:52.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:52.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.467][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.480][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.501][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.507][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.508][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.511][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.512][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.533][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.539][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.545][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.551][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.552][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.555][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.556][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.573][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:52.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:52.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.580][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:52.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:52.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.586][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:52.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:52.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.592][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:52.593][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:52.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.596][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:52.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:52.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.632][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.633][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.636][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:52.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:52.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:52.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:52.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:52.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:52.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.672][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:52.674][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:52.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.676][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:52.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:52.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.703][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.704][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.708][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.715][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:52.717][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:52.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.728][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:52.730][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:52.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.733][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:52.742][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:52.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.746][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.753][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.755][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:52.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.766][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.767][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:52.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.770][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.777][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.779][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:52.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.781][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.789][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:52.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.794][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.802][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.803][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:52.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.806][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.814][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:52.816][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:52.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.819][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:52.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:52.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.832][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 20:32:52.844][biodb::testThat]
biodb.INFO [2025-10-17 20:32:52.846][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-17 20:32:52.847][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:52.849][biodb::testThat]
biodb.DEBUG[2025-10-17 20:32:52.868][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-17 20:32:52.874][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:52.879][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:52.888][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-17 20:32:52.890][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:52.932][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:52.934][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:52.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:52.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:52.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:52.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:52.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:52.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:52.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:52.954][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.956][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:52.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:52.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.991][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:52.993][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:52.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:52.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:52.998][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:53.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:53.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.004][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:53.006][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:53.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.008][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:53.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:53.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.015][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:53.017][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:53.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:53.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:53.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.027][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.028][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.031][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.038][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:53.040][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:53.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.042][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.044][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:53.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:53.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.050][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:53.051][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.054][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.056][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:53.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.061][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:53.063][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:53.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:53.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:53.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.073][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.074][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.085][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:53.086][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:53.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.089][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.091][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:53.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:53.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.096][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:53.097][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:53.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.101][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:53.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:53.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:53.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:53.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:53.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:53.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:53.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:53.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:53.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:53.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:53.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:53.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:53.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:53.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:53.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:53.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:53.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:53.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:53.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:53.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:53.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:53.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:53.168][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-17 20:32:53.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-17 20:32:53.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-17 20:32:53.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-17 20:32:53.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-17 20:32:53.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-17 20:32:53.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-17 20:32:53.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 20:32:53.197][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.199][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-17 20:32:53.200][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:53.201][biodb::testThat]
biodb.TRACE[2025-10-17 20:32:53.206][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.207][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.210][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:53.212][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-17 20:32:53.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:53.270][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-17 20:32:53.276][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 20:32:53.313][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:53.319][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 20:32:53.321][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:32:53.347][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:32:53.387][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:53.391][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:32:53.393][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:32:53.395][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-17 20:32:53.415][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:53.416][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:53.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.419][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.421][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.425][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 20:32:53.431][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.433][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-17 20:32:53.434][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:53.435][biodb::testThat]
biodb.TRACE[2025-10-17 20:32:53.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.489][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:53.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:53.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:32:53.566][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:32:53.570][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:53.574][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:32:53.576][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-17 20:32:53.601][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.603][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-17 20:32:53.604][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:53.605][biodb::testThat]
biodb.TRACE[2025-10-17 20:32:53.633][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:53.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:53.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:53.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:53.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.653][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.678][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.683][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-17 20:32:53.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-17 20:32:53.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.688][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-17 20:32:53.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-17 20:32:53.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:53.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:53.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:53.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:53.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:53.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:53.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.751][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.756][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 20:32:53.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.761][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-17 20:32:53.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-17 20:32:53.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:53.766][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-17 20:32:53.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-17 20:32:53.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:53.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 20:32:53.780][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.782][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-17 20:32:53.783][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:53.785][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.797][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.799][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-17 20:32:53.800][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:53.802][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.814][biodb::testThat]
biodb.INFO [2025-10-17 20:32:53.815][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-17 20:32:53.817][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:53.818][biodb::testThat]
biodb.DEBUG[2025-10-17 20:32:53.824][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-17 20:32:54.507][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-17 20:32:55.105][biodb::testThat]
biodb.INFO [2025-10-17 20:32:55.106][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-17 20:32:55.108][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:55.109][biodb::testThat]
biodb.TRACE[2025-10-17 20:32:55.119][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:55.121][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:55.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.125][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:55.126][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:55.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.128][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 20:32:55.131][biodb::testThat]
biodb.INFO [2025-10-17 20:32:55.132][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-17 20:32:55.134][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:32:55.135][biodb::testThat]
biodb.TRACE[2025-10-17 20:32:55.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:55.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:55.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:55.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:55.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:55.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:55.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:32:55.313][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:32:55.317][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:55.321][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:32:55.323][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:32:55.441][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:32:55.445][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:55.448][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:32:55.450][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-17 20:32:55.471][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 20:32:55.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 20:32:55.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:32:55.522][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:32:55.525][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:55.529][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 20:32:55.530][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:32:55.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:55.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:55.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:55.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:55.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:55.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:55.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:55.552][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-17 20:32:55.628][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:55.631][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:55.636][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-17 20:32:55.638][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:55.639][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:55.641][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:55.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:55.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:55.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:55.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:55.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:55.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:55.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:55.662][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.666][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.674][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:55.675][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:55.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.678][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.680][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:55.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:55.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.686][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:55.687][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:55.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:55.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:55.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.698][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:55.699][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:55.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:55.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:55.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:55.711][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:55.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.714][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:55.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:55.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:55.723][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:55.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.727][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:55.729][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.731][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.733][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:55.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.739][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:55.740][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:55.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:55.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:55.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.758][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:55.760][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:55.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.763][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:55.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:55.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.771][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:55.773][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:55.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.777][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:55.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:55.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.783][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:55.784][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:55.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.787][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:55.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:55.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:55.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:55.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:55.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:55.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:55.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:55.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:55.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:55.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:55.851][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-17 20:32:55.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:32:55.884][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:32:55.888][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:55.891][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 20:32:55.893][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:32:55.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:55.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:55.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:55.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:55.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:55.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:55.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:55.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:55.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:55.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:55.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:55.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:55.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:55.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:55.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:55.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:55.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:55.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:55.972][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-17 20:32:55.973][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:55.976][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:55.980][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-17 20:32:55.981][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:55.983][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:55.985][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:55.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:55.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:55.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:55.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:55.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:56.005][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.006][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.017][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:56.018][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:56.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.021][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.023][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:56.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:56.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.029][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:56.031][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:56.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.034][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:56.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:56.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.043][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:56.044][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:56.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:56.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:56.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.054][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.055][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.058][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.065][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.067][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.069][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.071][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:56.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.077][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:56.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.096][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.105][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.117][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.118][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.121][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.129][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:56.131][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:56.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.133][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:56.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:56.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.198][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-17 20:32:56.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:32:56.244][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:32:56.248][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:32:56.252][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:32:56.253][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:32:56.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:56.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:56.314][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-17 20:32:56.316][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:56.318][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:56.321][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-17 20:32:56.323][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:56.324][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:56.326][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:56.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:56.345][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.346][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.357][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:56.359][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:56.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.361][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.363][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:56.365][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:56.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.368][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.370][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:56.371][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:56.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.376][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.377][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.381][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.383][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.386][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.387][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:56.389][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.395][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.397][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.399][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.400][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.410][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.411][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.416][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.421][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:56.422][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:56.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.490][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-17 20:32:56.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:56.535][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-17 20:32:56.536][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:56.538][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:56.543][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-17 20:32:56.544][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:56.546][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:56.548][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:56.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:56.570][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.572][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.575][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.583][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:56.584][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:56.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.587][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.589][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:56.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:56.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.595][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:56.596][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:56.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.611][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.614][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.617][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.619][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:56.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.629][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.630][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.632][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.634][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.642][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.644][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.646][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.648][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.654][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:56.655][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:56.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.658][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.714][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-17 20:32:56.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:56.759][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-17 20:32:56.768][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:56.770][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:56.774][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-17 20:32:56.776][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:56.777][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:56.779][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:56.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:56.799][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.800][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.810][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:56.812][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:56.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.816][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:56.817][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:56.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.820][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.822][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:56.823][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:56.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.826][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.829][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:56.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.832][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.833][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.835][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:56.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.837][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.839][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:56.841][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.843][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.845][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.846][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:56.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.849][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.851][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.852][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.855][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:56.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:56.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.863][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.864][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.869][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:56.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:56.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.874][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:56.876][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:56.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:56.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:56.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:56.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.944][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-17 20:32:56.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:56.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:56.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:56.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:56.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:56.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:56.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:56.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:56.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:56.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:56.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:56.988][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-17 20:32:56.990][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:56.992][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:56.997][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-17 20:32:56.999][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:57.001][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:57.002][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:57.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:57.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:57.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:57.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:57.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:57.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:57.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:57.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.026][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.034][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.036][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.039][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.040][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.047][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.048][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.052][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.059][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.061][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.071][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.073][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.082][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.084][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.086][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.088][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.118][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.121][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.126][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.131][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.133][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.135][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.143][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.144][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.146][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.154][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.155][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.158][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.160][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.166][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.167][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.172][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:57.232][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-17 20:32:57.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:57.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:57.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:57.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:57.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:57.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:57.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:57.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:57.264][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-17 20:32:57.266][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:57.268][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:57.273][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-17 20:32:57.275][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:57.276][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:57.278][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:57.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:57.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:57.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:57.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:57.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:57.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:57.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:57.306][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.307][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.318][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.319][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.324][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.329][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.330][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.335][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.340][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.342][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.345][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.355][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.363][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.364][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.366][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.368][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.373][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.375][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.377][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.379][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.384][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.386][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.395][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.397][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.402][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.407][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.408][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.410][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.412][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.418][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.420][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.422][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.424][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:57.493][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-17 20:32:57.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:57.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:57.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:57.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:57.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:57.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:57.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:57.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:57.527][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-17 20:32:57.529][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:57.531][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:57.535][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-17 20:32:57.536][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:57.538][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:57.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:57.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:57.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:57.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:57.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:57.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:57.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:57.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:57.560][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.562][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.565][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.573][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.574][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.578][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.580][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.587][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.589][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.593][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.599][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.600][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.603][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.610][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.611][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.614][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.630][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.632][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.635][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.637][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.638][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.643][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.649][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.659][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.661][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.671][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.673][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.675][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.677][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.683][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.685][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.687][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:57.750][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-17 20:32:57.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:57.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:57.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:57.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:57.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:57.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:57.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:57.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:57.795][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-17 20:32:57.797][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:57.800][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:57.805][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-17 20:32:57.807][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:57.809][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:57.811][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:57.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:57.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:57.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:57.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:57.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:57.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:57.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:57.832][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.844][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.847][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.855][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.856][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.861][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:57.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:57.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.866][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.868][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.870][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:57.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:57.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.878][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.879][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:57.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:57.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.890][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.891][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.894][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.896][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:57.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.902][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.903][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:57.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.906][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.908][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.909][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.914][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:57.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:57.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.920][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.922][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:57.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.934][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:57.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:57.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.947][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.948][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.951][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.953][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:57.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:57.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.959][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.960][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.965][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:57.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:57.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:57.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:57.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:57.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:57.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:57.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.034][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-17 20:32:58.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:58.067][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-17 20:32:58.069][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:58.071][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:58.075][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-17 20:32:58.077][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:58.078][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:58.080][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:58.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:58.101][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.102][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.113][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.114][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.117][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.118][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.124][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.126][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.128][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.136][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:58.137][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:58.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.140][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:58.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:58.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.147][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.157][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.169][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.171][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.175][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.176][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.180][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.186][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.187][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.198][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.199][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.202][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.211][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.212][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.217][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.223][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:58.225][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:58.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.228][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:58.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:58.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.291][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-17 20:32:58.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:58.335][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-17 20:32:58.336][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:58.338][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:58.343][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-17 20:32:58.344][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:58.346][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:58.348][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:58.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:58.368][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.379][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.381][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.383][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.384][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.390][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.391][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.402][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:58.403][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:58.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:58.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:58.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.413][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.416][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.423][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.427][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.429][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.430][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.434][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.440][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.441][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.443][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.450][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.452][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.454][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.462][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.464][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.466][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.474][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:58.475][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:58.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.477][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.479][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:58.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:58.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.547][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-17 20:32:58.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:58.581][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-17 20:32:58.582][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:58.585][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:58.589][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-17 20:32:58.591][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:58.593][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:58.595][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:58.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:58.614][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.615][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.617][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.623][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.625][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.627][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.629][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.634][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.636][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.638][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.640][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.645][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:58.646][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:58.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:58.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.677][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.679][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.681][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.683][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.684][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.687][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.689][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.696][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.706][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.711][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.718][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.719][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.722][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.730][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:58.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:58.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.734][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.735][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:58.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:58.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.797][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-17 20:32:58.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:58.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:58.838][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-17 20:32:58.840][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:58.842][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:58.846][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-17 20:32:58.847][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:58.849][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:58.852][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:58.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:58.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:58.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:58.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:58.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:58.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:58.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:58.872][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.874][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.884][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.885][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.888][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.889][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:58.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:58.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.894][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.896][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.899][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:58.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:58.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.906][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:58.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:58.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.910][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.911][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.913][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:58.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.917][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.919][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:58.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.923][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.924][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.929][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:58.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:58.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.934][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.935][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:58.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.944][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:58.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:58.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.956][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.957][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.961][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:58.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:58.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.967][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:58.969][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:58.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.971][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:58.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:58.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:58.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:58.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:58.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.033][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-17 20:32:59.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:59.065][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-17 20:32:59.066][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:59.068][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:59.072][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-17 20:32:59.073][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:59.074][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:59.076][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:59.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:59.095][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.096][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.099][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.105][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.107][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.111][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.116][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.117][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.120][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.122][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.127][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:59.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:59.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.133][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.134][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.137][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.145][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.147][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.149][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.151][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.152][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.154][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.156][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.163][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.166][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.173][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.174][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.177][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.184][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.185][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:59.195][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:59.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.250][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-17 20:32:59.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:59.283][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-17 20:32:59.285][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:59.287][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:59.292][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-17 20:32:59.293][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:59.302][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:59.304][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:59.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:59.324][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.326][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.336][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.337][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.340][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.341][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.347][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.349][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.353][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.359][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:59.360][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:59.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.363][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:59.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:59.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.370][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.371][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.382][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.383][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.386][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.387][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.389][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.393][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.410][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.416][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.421][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.423][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.427][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.432][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:59.433][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:59.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.436][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.438][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:59.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:59.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.506][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-17 20:32:59.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:59.539][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-17 20:32:59.540][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:59.543][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:59.548][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-17 20:32:59.549][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:59.551][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:59.553][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:59.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:59.574][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.575][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.578][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.584][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.586][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.588][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.590][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.595][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.597][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.601][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.609][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:59.610][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:59.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.612][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:59.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:59.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.620][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.622][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.624][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.642][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.643][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.646][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.648][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.649][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.652][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.654][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.663][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.670][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.672][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.675][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.682][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.684][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.686][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.687][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.693][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:59.695][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:59.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.697][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:59.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:59.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.760][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-17 20:32:59.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:32:59.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:32:59.801][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-17 20:32:59.802][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:32:59.804][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:32:59.808][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-17 20:32:59.810][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:32:59.812][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:32:59.813][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:32:59.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:32:59.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:32:59.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:32:59.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:32:59.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:32:59.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:32:59.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:32:59.832][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.834][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.836][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.844][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.845][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.850][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:32:59.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:32:59.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.856][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.857][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.861][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:32:59.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:32:59.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.867][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:59.868][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:59.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:32:59.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:32:59.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.880][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:32:59.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.889][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.890][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:32:59.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.892][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.894][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.895][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.900][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:32:59.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:32:59.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.905][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.906][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.909][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:32:59.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.916][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.918][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.920][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.922][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:32:59.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:32:59.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.928][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.929][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.932][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.933][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:32:59.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:32:59.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.939][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:59.940][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:59.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.944][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:32:59.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:32:59.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:32:59.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:32:59.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:32:59.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:32:59.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:32:59.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.013][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-17 20:33:00.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:00.049][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-17 20:33:00.050][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:00.052][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:00.057][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-17 20:33:00.059][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:00.061][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:00.063][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:00.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:00.082][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.084][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.087][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.094][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.096][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.099][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.100][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.106][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.107][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.111][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.117][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.126][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.138][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.143][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.150][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.152][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.154][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.156][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.158][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.162][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.168][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.191][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.200][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.201][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.209][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.210][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.212][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.220][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:00.221][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:00.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.224][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.225][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:00.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:00.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.283][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-17 20:33:00.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:00.325][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-17 20:33:00.326][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:00.329][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:00.333][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-17 20:33:00.334][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:00.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:00.338][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:00.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:00.359][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.372][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.374][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.383][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.385][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.389][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.395][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.407][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.408][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.418][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.419][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.422][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.423][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.425][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.428][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.429][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.435][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.436][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.446][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.457][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.459][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.461][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.463][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:00.479][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:00.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.482][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:00.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:00.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.543][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-17 20:33:00.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:00.577][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-17 20:33:00.578][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:00.580][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:00.598][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-17 20:33:00.600][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:00.603][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:00.605][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:00.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:00.624][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.625][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.635][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.638][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.640][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.659][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.661][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.663][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.665][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.671][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.673][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.676][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.684][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.685][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.695][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.697][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.701][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.703][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.706][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.707][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.713][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.714][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.717][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.724][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.725][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.735][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.737][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.739][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.741][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.746][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:00.748][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:00.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.750][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:00.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:00.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.817][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-17 20:33:00.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:00.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:00.849][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-17 20:33:00.850][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:00.851][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:00.856][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-17 20:33:00.857][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:00.859][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:00.860][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:00.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:00.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:00.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:00.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:00.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:00.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:00.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:00.879][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.881][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:00.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:00.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.890][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.891][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.893][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.895][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:00.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:00.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.900][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.901][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.904][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.906][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:00.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:00.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.911][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.912][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:00.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:00.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.921][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.923][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:00.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.933][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.934][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:00.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.939][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.940][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.945][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:00.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:00.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.949][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.951][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:00.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.961][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:00.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:00.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.983][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.985][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.989][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:00.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:00.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.994][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:00.995][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:00.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:00.998][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:00.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:01.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:01.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:01.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:01.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:01.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:01.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:01.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:01.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:01.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:01.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:01.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:01.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:01.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:01.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:01.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:01.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:01.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:01.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:01.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:01.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:01.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:01.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.060][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-17 20:33:01.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:33:01.105][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:01.108][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:01.112][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:33:01.114][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:01.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:01.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:01.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:01.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:01.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:01.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:01.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:33:01.925][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:01.929][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:01.931][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-17 20:33:01.933][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:33:01.938][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:01.942][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:01.944][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-17 20:33:01.946][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:01.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:01.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:01.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:01.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:01.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:01.964][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-17 20:33:01.966][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:01.968][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:01.972][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-17 20:33:01.974][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:01.976][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:01.977][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:01.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:01.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:01.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.008][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.009][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.012][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.019][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:02.020][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:02.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.025][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:02.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:02.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.030][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:02.031][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:02.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:02.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:02.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.041][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:02.043][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:02.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.045][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:02.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:02.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.055][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.062][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:02.064][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:02.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.068][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:02.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:02.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.074][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:02.075][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:02.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.079][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:02.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:02.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.085][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.089][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.097][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:02.099][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:02.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.101][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:02.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:02.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.109][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:02.110][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:02.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.113][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:02.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:02.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:02.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:02.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:02.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:02.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.192][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-17 20:33:02.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:02.256][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-17 20:33:02.257][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:02.259][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:02.263][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-17 20:33:02.265][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:02.267][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:02.268][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:02.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.287][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.288][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.297][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:02.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:02.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.300][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.309][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:02.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:02.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.316][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:02.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:02.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.322][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:02.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:02.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.327][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:02.328][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:02.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:02.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:02.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.338][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.340][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.342][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:02.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.350][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:02.351][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:02.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.356][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:02.357][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:02.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.361][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:02.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:02.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.378][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:02.379][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:02.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:02.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:02.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.390][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:02.391][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:02.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.393][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.395][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:02.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:02.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.400][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:02.401][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:02.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.406][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:02.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:02.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:02.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:02.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:02.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.472][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-17 20:33:02.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:33:02.517][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:02.521][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:02.525][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:33:02.527][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:02.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.927][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:02.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:02.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:02.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:02.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:02.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:02.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:02.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:02.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:02.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:02.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:02.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:33:03.228][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:03.231][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:03.234][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 20:33:03.236][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:03.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:03.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:03.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:03.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:03.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:03.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:03.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:03.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:03.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:03.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.960][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:03.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:03.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 20:33:03.979][biodb::testThat]
biodb.INFO [2025-10-17 20:33:03.980][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-17 20:33:03.982][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:03.983][biodb::testThat]
biodb.TRACE[2025-10-17 20:33:03.987][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 20:33:03.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 20:33:03.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:03.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:03.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:03.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:03.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:03.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:04.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:04.036][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:04.040][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:04.043][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 20:33:04.044][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:04.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:33:04.271][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:04.275][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:04.278][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 20:33:04.280][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:04.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:04.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:04.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:04.337][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 20:33:04.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.364][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:04.365][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:04.366][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:04.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.370][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.374][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.377][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.379][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.382][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.385][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:04.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.410][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-17 20:33:04.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.436][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.437][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:04.439][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:04.440][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:04.442][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.444][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.448][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.449][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.453][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.455][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.456][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.462][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:04.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.478][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 20:33:04.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.508][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.509][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:04.511][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:04.512][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:04.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.515][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.517][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.521][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.525][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.527][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.528][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.529][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.531][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.533][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.535][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:04.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.552][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-17 20:33:04.553][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 20:33:04.554][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 20:33:04.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:04.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:04.685][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:04.688][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:04.690][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-17 20:33:04.691][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:33:04.695][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:04.697][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:04.701][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-17 20:33:04.702][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:04.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:04.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:04.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:04.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:04.820][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 20:33:04.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.873][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.874][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:04.875][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:04.876][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:04.877][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.889][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.890][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.892][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.894][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.896][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:04.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.914][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-17 20:33:04.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:04.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:04.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:04.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:04.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:04.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:04.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:04.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.983][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.984][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:04.986][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:04.987][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:04.988][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:04.989][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.990][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.994][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:04.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:04.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:04.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.012][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.015][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.017][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.018][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.033][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 20:33:05.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.059][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:05.067][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:05.068][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:05.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.074][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.081][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.083][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.086][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.087][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.102][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-17 20:33:05.104][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 20:33:05.105][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 20:33:05.117][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:05.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:05.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 20:33:05.126][biodb::testThat]
biodb.INFO [2025-10-17 20:33:05.127][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-17 20:33:05.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:05.130][biodb::testThat]
biodb.TRACE[2025-10-17 20:33:05.134][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 20:33:05.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 20:33:05.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:05.179][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:05.182][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:05.185][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 20:33:05.186][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:05.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:33:05.217][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:05.220][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:05.222][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 20:33:05.223][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:05.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.283][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 20:33:05.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.310][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:05.311][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:05.313][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:05.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.314][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.316][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.320][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.326][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.332][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.349][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-17 20:33:05.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.372][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.373][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:05.374][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:05.375][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:05.375][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.382][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.386][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.387][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.388][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.390][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.393][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.407][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 20:33:05.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.434][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:05.435][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:05.436][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:05.437][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.438][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.439][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.441][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.442][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.444][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.446][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.447][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.449][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.450][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.454][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-17 20:33:05.482][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 20:33:05.483][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 20:33:05.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:05.540][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:05.543][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:05.546][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-17 20:33:05.547][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:33:05.551][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:05.555][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:05.557][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-17 20:33:05.559][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:05.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:05.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.646][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 20:33:05.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.675][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:05.676][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:05.677][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:05.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.683][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.687][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.688][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.690][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.690][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.691][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.694][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.695][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.711][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-17 20:33:05.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.739][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:05.740][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:05.741][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:05.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.747][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.748][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.753][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.753][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.759][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.776][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 20:33:05.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.802][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:05.804][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:05.805][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:05.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.811][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.818][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:05.819][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.823][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.824][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:05.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:05.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.842][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-17 20:33:05.843][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 20:33:05.844][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 20:33:05.856][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:05.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:05.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 20:33:05.869][biodb::testThat]
biodb.INFO [2025-10-17 20:33:05.870][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-17 20:33:05.872][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:05.872][biodb::testThat]
biodb.TRACE[2025-10-17 20:33:05.877][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 20:33:05.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 20:33:05.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:05.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:05.932][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:05.935][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:05.937][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 20:33:05.938][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:05.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:05.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:05.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 20:33:05.970][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:05.973][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:05.976][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 20:33:05.977][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:05.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:05.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:05.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:05.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:05.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:05.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:05.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:05.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:05.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.037][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 20:33:06.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.063][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.064][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:06.066][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:06.066][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:06.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.072][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.074][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.080][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.085][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.086][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:06.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.103][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-17 20:33:06.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.127][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.128][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:06.129][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:06.130][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:06.131][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.136][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.140][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.142][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.143][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.145][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.148][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:06.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.162][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 20:33:06.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.189][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.190][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:06.191][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:06.192][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:06.192][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.195][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.197][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.198][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.199][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.201][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.202][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.203][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.208][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.209][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:06.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.224][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-17 20:33:06.225][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 20:33:06.227][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 20:33:06.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:06.298][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:06.302][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:06.304][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-17 20:33:06.306][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:33:06.309][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:06.312][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:06.315][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-17 20:33:06.317][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:06.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.416][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 20:33:06.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.442][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:06.443][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:06.444][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:06.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.447][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.455][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.457][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.462][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:06.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.486][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-17 20:33:06.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.519][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:06.521][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:06.521][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:06.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.525][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.527][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.529][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.530][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.532][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.537][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.538][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:06.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.552][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 20:33:06.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.575][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.577][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 20:33:06.578][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 20:33:06.579][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 20:33:06.580][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.585][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.586][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.592][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 20:33:06.593][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.594][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.597][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.598][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 20:33:06.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.617][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-17 20:33:06.618][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 20:33:06.619][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 20:33:06.647][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:06.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 20:33:06.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 20:33:06.659][biodb::testThat]
biodb.INFO [2025-10-17 20:33:06.661][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-17 20:33:06.662][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:06.664][biodb::testThat]
biodb.DEBUG[2025-10-17 20:33:06.666][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-17 20:33:06.667][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:06.669][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:06.673][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-17 20:33:06.674][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:06.676][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:06.677][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:06.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.696][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.698][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.700][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.708][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:06.710][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:06.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.712][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.714][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:06.715][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:06.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.718][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.720][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:06.721][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:06.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.724][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.726][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:06.727][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:06.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.732][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:06.733][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:06.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.736][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.737][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:06.739][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.741][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.743][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.744][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.746][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:06.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:06.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.753][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:06.755][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:06.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.757][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.758][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:06.760][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:06.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.762][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.821][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-17 20:33:06.822][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-17 20:33:06.834][biodb::testThat]
biodb.INFO [2025-10-17 20:33:06.835][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-17 20:33:06.837][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:06.838][biodb::testThat]
biodb.DEBUG[2025-10-17 20:33:06.854][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-17 20:33:06.856][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-17 20:33:06.858][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-17 20:33:06.860][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:06.863][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-17 20:33:06.867][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-17 20:33:06.872][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-17 20:33:06.874][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:06.876][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-17 20:33:06.877][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:06.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:06.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:06.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:06.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:06.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:06.896][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.897][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.900][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.907][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:06.909][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:06.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.912][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:06.914][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:06.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.916][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.918][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:06.920][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:06.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.924][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:06.925][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:06.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.929][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:06.931][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:06.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.935][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:06.936][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:06.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.940][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:06.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.946][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:06.947][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:06.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.950][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.952][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:06.953][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:06.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.957][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:06.958][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:06.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:06.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:06.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:06.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:06.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:06.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:06.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:06.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:06.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:07.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:07.012][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.016][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.022][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:07.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:07.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.026][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:07.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:07.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.031][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:07.032][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:07.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:07.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:07.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.042][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:07.043][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:07.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:07.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:07.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.055][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.062][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.063][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.068][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.072][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:07.074][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:07.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.076][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.078][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:07.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:07.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.083][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.084][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.087][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.093][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:07.094][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:07.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.096][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:07.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:07.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.102][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:07.103][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:07.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.106][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:07.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:07.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.110][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:07.112][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:07.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.114][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:07.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:07.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:07.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:07.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:07.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:07.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:07.171][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.182][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:07.184][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:07.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.188][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:07.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:07.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.194][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:07.195][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:07.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.199][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:07.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:07.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.203][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:07.204][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:07.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:07.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:07.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.222][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.224][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:07.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.232][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.237][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:07.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.241][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:07.243][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:07.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.246][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:07.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:07.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.253][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.260][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:07.261][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:07.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:07.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:07.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.270][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:07.272][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:07.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.274][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.276][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:07.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:07.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.281][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:07.282][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:07.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.285][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.286][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:07.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:07.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:07.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:07.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:07.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:07.366][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-17 20:33:07.367][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-17 20:33:07.368][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-17 20:33:07.387][biodb::testThat]
biodb.INFO [2025-10-17 20:33:07.389][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-17 20:33:07.391][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:07.392][biodb::testThat]
biodb.INFO [2025-10-17 20:33:07.430][biodb::testThat]
biodb.INFO [2025-10-17 20:33:07.431][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-17 20:33:07.433][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:07.434][biodb::testThat]
biodb.INFO [2025-10-17 20:33:07.448][biodb::testThat]
biodb.INFO [2025-10-17 20:33:07.449][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-17 20:33:07.451][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:07.453][biodb::testThat]
sched.DEBUG[2025-10-17 20:33:07.456][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:07.461][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:07.467][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-17 20:33:07.469][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-17 20:33:07.488][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:07.490][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:07.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.493][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:07.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:07.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:07.500][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 20:33:07.502][biodb::testThat]
biodb.INFO [2025-10-17 20:33:07.503][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-17 20:33:07.505][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:07.507][biodb::testThat]
biodb.ERROR[2025-10-17 20:33:07.530][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-17 20:33:07.554][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-17 20:33:07.574][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 20:33:07.575][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 20:33:07.577][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 20:33:07.578][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:07.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:07.580][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.582][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-17 20:33:07.596][biodb::testContext]
biodb.INFO [2025-10-17 20:33:07.597][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:33:07.599][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-17 20:33:07.601][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:33:07.602][biodb::testContext]
biodb.INFO [2025-10-17 20:33:07.605][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:33:07.607][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 20:33:07.612][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:07.613][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 20:33:07.614][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 20:33:07.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.619][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 20:33:07.620][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 20:33:07.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.625][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 20:33:07.626][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 20:33:07.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.630][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 20:33:07.632][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 20:33:07.633][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 20:33:07.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.638][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 20:33:07.639][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 20:33:07.640][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 20:33:07.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.646][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 20:33:07.647][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 20:33:07.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.651][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 20:33:07.652][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 20:33:07.653][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 20:33:07.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.665][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 20:33:07.667][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 20:33:07.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.671][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 20:33:07.672][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 20:33:07.674][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 20:33:07.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.677][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:33:07.679][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 20:33:07.680][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 20:33:07.681][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 20:33:07.682][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 20:33:07.683][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 20:33:07.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.687][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 20:33:07.689][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 20:33:07.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.693][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 20:33:07.694][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 20:33:07.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.699][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 20:33:07.700][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 20:33:07.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.704][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 20:33:07.706][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 20:33:07.707][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 20:33:07.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.712][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:33:07.713][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 20:33:07.737][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 20:33:07.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.742][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 20:33:07.744][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 20:33:07.745][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 20:33:07.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.750][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 20:33:07.753][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.754][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-17 20:33:07.755][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.756][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:07.757][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.758][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.760][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.762][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.764][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:33:07.765][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:07.766][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.768][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 20:33:07.769][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:07.771][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.772][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.773][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:07.773][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:07.773][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:07.773][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:33:07.773][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:33:07.774][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:07.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.778][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:07.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.779][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.781][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.782][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.783][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:07.784][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:07.785][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.786][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.787][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 20:33:07.789][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.790][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:33:07.791][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.792][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:07.793][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.794][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.796][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.797][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.798][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:33:07.800][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:07.800][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.802][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 20:33:07.803][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:07.804][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.806][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.807][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:07.807][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:07.807][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:07.807][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:33:07.807][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:33:07.808][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:07.809][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.811][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:07.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.815][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.816][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.817][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:07.818][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:07.819][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.820][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.822][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 20:33:07.824][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.825][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-17 20:33:07.827][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:07.830][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.831][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.832][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.834][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.835][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:33:07.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:07.838][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.839][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 20:33:07.840][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:07.842][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.843][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.844][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.845][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:07.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.849][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:07.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.853][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.854][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.855][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:07.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:07.858][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.859][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.860][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 20:33:07.862][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.863][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:33:07.865][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.866][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:07.867][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.868][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.870][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.871][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.872][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:33:07.874][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:07.875][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.876][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 20:33:07.877][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:07.878][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.879][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:07.880][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.882][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:07.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.886][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:07.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:07.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:07.889][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:07.890][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.892][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:07.892][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:07.894][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:07.895][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:07.897][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:07.898][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:07.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:07.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:07.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:07.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:07.985][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 20:33:07.987][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 20:33:07.989][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 20:33:07.991][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 20:33:07.993][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:33:07.994][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 20:33:07.996][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 20:33:07.997][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 20:33:07.999][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 20:33:08.001][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 20:33:08.003][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:33:08.004][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 20:33:08.006][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 20:33:08.007][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 20:33:08.009][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 20:33:08.010][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 20:33:08.012][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 20:33:08.013][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 20:33:08.015][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:33:08.017][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 20:33:08.019][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 20:33:08.021][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 20:33:08.023][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 20:33:08.025][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 20:33:08.027][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 20:33:08.028][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 20:33:08.030][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 20:33:08.032][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 20:33:08.034][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 20:33:08.036][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 20:33:08.038][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 20:33:08.039][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 20:33:08.041][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 20:33:08.043][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 20:33:08.045][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 20:33:08.046][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 20:33:08.048][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 20:33:08.050][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 20:33:08.052][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 20:33:08.053][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 20:33:08.055][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 20:33:08.057][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 20:33:08.058][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 20:33:08.060][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 20:33:08.061][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 20:33:08.063][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 20:33:08.064][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 20:33:08.073][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 20:33:08.075][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 20:33:08.077][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 20:33:08.078][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 20:33:08.080][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 20:33:08.081][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 20:33:08.083][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 20:33:08.085][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 20:33:08.086][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 20:33:08.088][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 20:33:08.090][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 20:33:08.092][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 20:33:08.093][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 20:33:08.095][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 20:33:08.096][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 20:33:08.098][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 20:33:08.100][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 20:33:08.101][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 20:33:08.103][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 20:33:08.104][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:33:08.106][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:33:08.108][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 20:33:08.109][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 20:33:08.111][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 20:33:08.112][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 20:33:08.114][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 20:33:08.115][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 20:33:08.117][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 20:33:08.118][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 20:33:08.119][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 20:33:08.121][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 20:33:08.122][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 20:33:08.123][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 20:33:08.125][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 20:33:08.127][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 20:33:08.128][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 20:33:08.130][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 20:33:08.132][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:33:08.133][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:08.134][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.137][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.264][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 20:33:08.266][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 20:33:08.268][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.270][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.271][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.272][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:08.274][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.275][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.276][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.278][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 20:33:08.279][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 20:33:08.280][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:08.282][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.283][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 20:33:08.285][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 20:33:08.286][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 20:33:08.288][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.289][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:08.289][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:08.289][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:08.291][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 20:33:08.292][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:08.293][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:08.295][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:08.296][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:08.297][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:08.299][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.300][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 20:33:08.300][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 20:33:08.302][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:08.303][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:08.304][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.305][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 20:33:08.305][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 20:33:08.306][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:33:08.309][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:33:08.310][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 20:33:08.312][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:33:08.315][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:33:08.316][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:33:08.321][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 20:33:08.326][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 20:33:08.328][biodb::testThat]
biodb.INFO [2025-10-17 20:33:08.329][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-17 20:33:08.331][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:08.331][biodb::testThat]
sched.DEBUG[2025-10-17 20:33:08.335][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 20:33:08.338][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.343][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 20:33:08.345][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:33:08.349][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.353][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.356][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-17 20:33:08.357][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:08.375][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.378][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.381][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-17 20:33:08.383][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:08.447][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.451][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.454][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-17 20:33:08.455][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.485][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:08.493][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.497][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.499][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-17 20:33:08.501][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:08.559][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.563][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.565][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-17 20:33:08.567][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:08.587][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.590][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.593][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-17 20:33:08.595][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:08.615][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.618][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.622][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-17 20:33:08.623][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-17 20:33:08.651][biodb::testThat]
biodb.INFO [2025-10-17 20:33:08.653][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-17 20:33:08.655][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:08.656][biodb::testThat]
sched.DEBUG[2025-10-17 20:33:08.661][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.665][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.674][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-17 20:33:08.676][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 20:33:08.699][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:08.703][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:08.706][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-17 20:33:08.707][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:08.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:08.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-17 20:33:08.734][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 20:33:08.736][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 20:33:08.737][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 20:33:08.738][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:08.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:08.741][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:08.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:08.743][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-17 20:33:08.750][biodb::testContext]
biodb.INFO [2025-10-17 20:33:08.752][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:33:08.753][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-17 20:33:08.754][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:33:08.756][biodb::testContext]
biodb.INFO [2025-10-17 20:33:08.759][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:33:08.762][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 20:33:08.767][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:08.769][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 20:33:08.771][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 20:33:08.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.776][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 20:33:08.777][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 20:33:08.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.781][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 20:33:08.783][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 20:33:08.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.788][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 20:33:08.789][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 20:33:08.790][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 20:33:08.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.795][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 20:33:08.796][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 20:33:08.798][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 20:33:08.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.802][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 20:33:08.803][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 20:33:08.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.808][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 20:33:08.809][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 20:33:08.811][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 20:33:08.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.816][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 20:33:08.817][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 20:33:08.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.822][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 20:33:08.823][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 20:33:08.824][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 20:33:08.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.829][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:33:08.831][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 20:33:08.832][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 20:33:08.833][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 20:33:08.835][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 20:33:08.836][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 20:33:08.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.841][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 20:33:08.843][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 20:33:08.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.848][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 20:33:08.849][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 20:33:08.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.854][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 20:33:08.855][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 20:33:08.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.859][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 20:33:08.860][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 20:33:08.861][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 20:33:08.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.866][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:33:08.867][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 20:33:08.891][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 20:33:08.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.895][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 20:33:08.897][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 20:33:08.898][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 20:33:08.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:08.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:08.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:08.903][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 20:33:08.905][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.906][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-17 20:33:08.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.909][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:08.910][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.911][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.913][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.914][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.916][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:33:08.917][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:08.918][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.920][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 20:33:08.921][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:08.922][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.923][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.924][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:08.924][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:08.924][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:08.924][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:33:08.924][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:33:08.925][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:08.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:08.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:08.929][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:08.930][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:08.931][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:08.932][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.933][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.934][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:08.935][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:08.936][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.938][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.939][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 20:33:08.942][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.943][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:33:08.944][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.946][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:08.947][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.949][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.950][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.951][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.953][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:33:08.954][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:08.955][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.957][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 20:33:08.958][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:08.959][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.960][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.962][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:08.962][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:08.962][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:08.962][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:33:08.962][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:33:08.963][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:08.964][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:08.965][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:08.966][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:08.968][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:08.969][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:08.970][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.971][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.972][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:08.973][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:08.974][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.975][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.977][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 20:33:08.979][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.980][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-17 20:33:08.982][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.983][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:08.984][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.986][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.987][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.988][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:08.990][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:33:08.991][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:08.992][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:08.993][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 20:33:08.994][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:08.995][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.996][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:08.997][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:08.999][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:09.000][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.001][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.003][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:09.004][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.005][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.006][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.007][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.008][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:09.009][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:09.010][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.011][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.021][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 20:33:09.024][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.025][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:33:09.027][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.028][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:09.029][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.031][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.032][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.033][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.034][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:33:09.035][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:09.036][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.037][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 20:33:09.039][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:09.040][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.041][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.042][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.043][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:09.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.045][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.046][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:09.047][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.048][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.049][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.050][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.051][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:09.052][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:09.053][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.055][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.056][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:09.058][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.150][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 20:33:09.152][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 20:33:09.153][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 20:33:09.155][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 20:33:09.157][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:33:09.159][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 20:33:09.160][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 20:33:09.162][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 20:33:09.164][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 20:33:09.166][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 20:33:09.168][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:33:09.170][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 20:33:09.171][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 20:33:09.173][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 20:33:09.175][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 20:33:09.176][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 20:33:09.178][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 20:33:09.180][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 20:33:09.181][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:33:09.183][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 20:33:09.185][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 20:33:09.187][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 20:33:09.188][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 20:33:09.190][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 20:33:09.191][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 20:33:09.193][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 20:33:09.195][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 20:33:09.197][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 20:33:09.199][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 20:33:09.201][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 20:33:09.203][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 20:33:09.205][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 20:33:09.206][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 20:33:09.208][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 20:33:09.210][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 20:33:09.212][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 20:33:09.214][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 20:33:09.216][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 20:33:09.217][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 20:33:09.219][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 20:33:09.221][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 20:33:09.223][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 20:33:09.225][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 20:33:09.227][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 20:33:09.229][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 20:33:09.230][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 20:33:09.232][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 20:33:09.234][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 20:33:09.236][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 20:33:09.237][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 20:33:09.239][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 20:33:09.241][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 20:33:09.243][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 20:33:09.245][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 20:33:09.247][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 20:33:09.249][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 20:33:09.250][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 20:33:09.252][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 20:33:09.253][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 20:33:09.255][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 20:33:09.257][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 20:33:09.259][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 20:33:09.261][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 20:33:09.262][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 20:33:09.264][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 20:33:09.266][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 20:33:09.267][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:33:09.269][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:33:09.271][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 20:33:09.273][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 20:33:09.275][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 20:33:09.276][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 20:33:09.278][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 20:33:09.280][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 20:33:09.282][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 20:33:09.284][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 20:33:09.286][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 20:33:09.288][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 20:33:09.289][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 20:33:09.291][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 20:33:09.293][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 20:33:09.295][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 20:33:09.296][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 20:33:09.298][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 20:33:09.300][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:33:09.301][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:09.302][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.305][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.446][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 20:33:09.448][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 20:33:09.450][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.451][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.453][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.454][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:09.455][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.456][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.457][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.459][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 20:33:09.460][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 20:33:09.461][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:09.462][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.464][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 20:33:09.465][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 20:33:09.466][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 20:33:09.467][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.469][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:09.469][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:09.469][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:09.470][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 20:33:09.471][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.472][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.473][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:09.474][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.475][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.476][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.477][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 20:33:09.477][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 20:33:09.478][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:09.479][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:09.481][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.482][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 20:33:09.482][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 20:33:09.483][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:33:09.485][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:33:09.487][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 20:33:09.489][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:33:09.491][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:33:09.493][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:33:09.497][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 20:33:09.501][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 20:33:09.503][biodb::testThat]
biodb.INFO [2025-10-17 20:33:09.504][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-17 20:33:09.506][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:09.507][biodb::testThat]
sched.DEBUG[2025-10-17 20:33:09.510][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 20:33:09.512][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:09.517][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 20:33:09.518][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:33:09.523][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:09.527][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:09.530][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-17 20:33:09.531][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-17 20:33:09.543][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 20:33:09.544][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 20:33:09.545][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 20:33:09.546][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:09.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:09.549][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.551][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-17 20:33:09.556][biodb::testContext]
biodb.INFO [2025-10-17 20:33:09.557][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:33:09.558][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-17 20:33:09.560][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 20:33:09.561][biodb::testContext]
biodb.INFO [2025-10-17 20:33:09.563][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:33:09.565][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 20:33:09.570][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:09.572][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 20:33:09.573][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 20:33:09.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.578][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 20:33:09.579][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 20:33:09.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.583][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 20:33:09.584][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 20:33:09.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.589][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 20:33:09.591][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 20:33:09.592][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 20:33:09.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.596][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 20:33:09.597][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 20:33:09.598][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 20:33:09.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.603][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 20:33:09.604][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 20:33:09.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.608][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 20:33:09.609][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 20:33:09.611][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 20:33:09.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.615][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 20:33:09.617][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 20:33:09.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.622][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 20:33:09.623][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 20:33:09.624][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 20:33:09.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.628][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:33:09.629][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 20:33:09.630][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 20:33:09.631][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 20:33:09.632][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 20:33:09.634][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 20:33:09.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.638][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 20:33:09.640][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 20:33:09.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.645][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 20:33:09.646][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 20:33:09.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.651][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 20:33:09.653][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 20:33:09.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.657][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 20:33:09.658][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 20:33:09.660][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 20:33:09.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.664][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 20:33:09.665][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 20:33:09.689][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 20:33:09.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.693][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 20:33:09.695][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 20:33:09.696][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 20:33:09.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.700][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 20:33:09.702][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.703][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-17 20:33:09.705][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.706][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:09.707][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.708][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.709][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.711][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.712][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:33:09.713][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:09.715][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.716][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 20:33:09.717][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:09.719][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.720][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.721][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:09.721][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:09.721][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:09.721][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:33:09.721][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:33:09.723][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:09.724][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.725][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.726][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:09.727][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.728][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.729][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.731][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.731][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:09.732][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:09.734][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.735][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.737][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 20:33:09.739][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.740][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:33:09.742][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.743][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:09.744][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.746][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.747][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.748][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.750][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:33:09.751][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:09.752][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.754][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 20:33:09.755][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:09.756][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.758][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.759][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:09.759][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:09.759][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:09.759][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 20:33:09.759][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 20:33:09.760][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:09.762][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.763][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.764][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:09.765][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.767][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.768][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.769][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.771][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:09.772][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:09.773][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.774][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.776][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 20:33:09.778][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.780][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-17 20:33:09.781][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:09.784][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.785][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.786][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.787][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.789][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 20:33:09.790][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:09.791][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.793][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 20:33:09.794][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:09.795][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.797][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.798][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.799][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:09.800][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.803][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:09.804][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.807][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.808][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.809][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:09.810][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:09.812][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.813][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.814][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 20:33:09.817][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.818][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 20:33:09.820][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.821][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:09.822][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.824][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.825][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.827][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.828][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 20:33:09.830][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:09.831][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.832][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 20:33:09.834][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:09.835][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.837][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:09.838][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.847][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 20:33:09.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:09.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:09.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:09.855][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:09.856][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:09.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:09.859][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:09.860][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 20:33:09.862][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:09.863][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:09.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:09.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:09.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:09.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:09.948][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 20:33:09.950][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 20:33:09.951][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 20:33:09.953][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 20:33:09.955][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:33:09.956][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 20:33:09.958][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 20:33:09.960][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 20:33:09.962][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 20:33:09.964][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 20:33:09.965][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:33:09.966][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 20:33:09.968][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 20:33:09.969][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 20:33:09.970][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 20:33:09.972][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 20:33:09.973][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 20:33:09.975][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 20:33:09.976][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:33:09.978][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 20:33:09.979][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 20:33:09.981][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 20:33:09.982][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 20:33:09.984][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 20:33:09.986][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 20:33:09.987][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 20:33:09.989][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 20:33:09.990][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 20:33:09.991][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 20:33:09.993][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 20:33:09.994][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 20:33:09.996][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 20:33:09.997][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 20:33:09.999][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 20:33:10.000][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 20:33:10.002][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 20:33:10.003][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 20:33:10.005][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 20:33:10.006][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 20:33:10.008][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 20:33:10.009][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 20:33:10.011][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 20:33:10.012][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 20:33:10.014][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 20:33:10.015][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 20:33:10.017][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 20:33:10.018][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 20:33:10.020][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 20:33:10.021][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 20:33:10.023][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 20:33:10.025][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 20:33:10.026][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 20:33:10.028][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 20:33:10.030][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 20:33:10.032][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 20:33:10.034][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 20:33:10.035][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 20:33:10.037][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 20:33:10.039][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 20:33:10.041][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 20:33:10.043][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 20:33:10.045][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 20:33:10.046][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 20:33:10.048][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 20:33:10.049][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 20:33:10.051][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 20:33:10.053][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:33:10.055][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:33:10.056][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 20:33:10.058][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 20:33:10.059][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 20:33:10.061][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 20:33:10.063][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 20:33:10.065][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 20:33:10.066][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 20:33:10.068][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 20:33:10.069][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 20:33:10.071][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 20:33:10.073][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 20:33:10.075][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 20:33:10.076][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 20:33:10.078][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 20:33:10.080][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 20:33:10.081][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 20:33:10.083][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 20:33:10.084][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 20:33:10.085][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.087][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 20:33:10.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 20:33:10.216][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 20:33:10.217][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 20:33:10.220][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:10.220][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 20:33:10.222][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:10.223][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 20:33:10.224][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:10.225][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 20:33:10.226][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:10.227][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 20:33:10.228][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 20:33:10.229][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 20:33:10.230][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:10.231][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 20:33:10.232][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 20:33:10.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 20:33:10.234][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 20:33:10.235][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 20:33:10.235][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 20:33:10.235][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 20:33:10.236][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 20:33:10.237][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:10.238][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:10.240][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 20:33:10.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 20:33:10.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 20:33:10.242][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 20:33:10.243][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 20:33:10.243][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 20:33:10.244][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 20:33:10.245][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 20:33:10.246][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 20:33:10.248][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 20:33:10.248][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 20:33:10.249][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 20:33:10.251][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 20:33:10.252][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 20:33:10.254][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 20:33:10.255][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 20:33:10.257][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 20:33:10.260][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 20:33:10.265][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 20:33:10.266][biodb::testThat]
biodb.INFO [2025-10-17 20:33:10.268][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-17 20:33:10.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 20:33:10.270][biodb::testThat]
sched.DEBUG[2025-10-17 20:33:10.272][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 20:33:10.275][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:10.281][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 20:33:10.283][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 20:33:10.287][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 20:33:10.291][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-17 20:33:10.294][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-17 20:33:10.296][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 20:33:10.302][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-17 20:33:10.306][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 20:33:10.318][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 20:33:10.325][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-17 20:33:10.328][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 20:33:10.330][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 20:33:10.333][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 20:33:10.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 20:33:10.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 20:33:10.353][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.355][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.357][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.363][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:10.364][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:10.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.366][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.368][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 20:33:10.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 20:33:10.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.373][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:10.374][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:10.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 20:33:10.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 20:33:10.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 20:33:10.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 20:33:10.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.387][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 20:33:10.389][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 20:33:10.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:10.394][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:10.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.396][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.397][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:10.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 20:33:10.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.402][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:10.403][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:10.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.407][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 20:33:10.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 20:33:10.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.413][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:10.415][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:10.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:10.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 20:33:10.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.425][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:10.427][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:10.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.429][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 20:33:10.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 20:33:10.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.436][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:10.437][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:10.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.441][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 20:33:10.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 20:33:10.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:10.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:10.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.451][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 20:33:10.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 20:33:10.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:10.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:10.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:10.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:10.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 20:33:10.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 20:33:10.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 20:33:10.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 20:33:10.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 20:33:10.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 20:33:10.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 20:33:10.503][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-17 20:33:10.509][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 20:33:10.511][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 20:33:10.512][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 20:33:10.513][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 20:33:10.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 20:33:10.514][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 20:33:10.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 20:33:10.516][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 20:33:10.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 19.872   1.160  22.722

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.7281.2304.121
ChebiEntry0.3350.0220.373