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This page was generated on 2025-11-04 12:03 -0500 (Tue, 04 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4902
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4692
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4638
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 210/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-11-03 13:45 -0500 (Mon, 03 Nov 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 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

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: 1.16.0
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_1.16.0.tar.gz
StartedAt: 2025-11-03 19:48:08 -0500 (Mon, 03 Nov 2025)
EndedAt: 2025-11-03 19:49:39 -0500 (Mon, 03 Nov 2025)
EllapsedTime: 91.1 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_1.16.0.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 ‘1.16.0’
* 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 ‘1.16.0’
** 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 [2025-11-03 19:49:07.282][biodb::testContext]
biodb.INFO [2025-11-03 19:49:07.286][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:07.288][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-03 19:49:07.289][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:07.291][biodb::testContext]
biodb.INFO [2025-11-03 19:49:07.298][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:07.300][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:07.306][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:07.307][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-03 19:49:07.309][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-03 19:49:07.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.312][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-03 19:49:07.338][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-03 19:49:07.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.342][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.343][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-03 19:49:07.345][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-03 19:49:07.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.350][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-03 19:49:07.351][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-03 19:49:07.353][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-03 19:49:07.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.356][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.357][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-03 19:49:07.358][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-03 19:49:07.359][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-03 19:49:07.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.363][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-03 19:49:07.364][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-03 19:49:07.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.368][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.DEBUG[2025-11-03 19:49:07.369][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-03 19:49:07.370][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-03 19:49:07.371][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-03 19:49:07.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.374][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-03 19:49:07.375][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-03 19:49:07.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.377][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.378][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-03 19:49:07.390][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-03 19:49:07.391][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-03 19:49:07.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.395][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:07.397][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-03 19:49:07.398][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-03 19:49:07.399][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-03 19:49:07.400][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-03 19:49:07.401][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-03 19:49:07.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.405][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.406][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-03 19:49:07.407][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-03 19:49:07.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.411][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-03 19:49:07.412][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-03 19:49:07.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.415][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.416][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-03 19:49:07.417][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-03 19:49:07.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.420][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-03 19:49:07.421][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-03 19:49:07.422][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-03 19:49:07.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.424][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.425][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:07.426][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-03 19:49:07.449][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-03 19:49:07.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:07.454][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-03 19:49:07.455][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-03 19:49:07.457][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-03 19:49:07.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.459][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.462][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-03 19:49:07.508][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.530][self$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[2025-11-03 19:49:07.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.534][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:07.535][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.537][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.539][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.540][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.542][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:07.543][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:07.545][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.546][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-03 19:49:07.548][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:07.549][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.550][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.551][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:07.551][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:07.551][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:07.551][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:07.551][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:07.552][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:07.552][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.553][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.555][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:07.557][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.558][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.559][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.561][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.562][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:07.563][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:07.564][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.565][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.567][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-03 19:49:07.568][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.570][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:07.571][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.572][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:07.574][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.575][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.577][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.578][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:07.579][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:07.580][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.581][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-03 19:49:07.583][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:07.584][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.586][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.587][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:07.587][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:07.587][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:07.587][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:07.587][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:07.588][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:07.590][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.591][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.592][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:07.593][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.594][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.596][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.597][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.598][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:07.599][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:07.600][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.601][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.603][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-03 19:49:07.605][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.607][self$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[2025-11-03 19:49:07.608][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.609][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:07.610][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.611][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.612][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.613][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.614][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:07.615][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:07.616][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.617][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-03 19:49:07.618][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:07.627][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.629][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.630][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.631][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:07.632][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.633][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.634][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:07.635][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.636][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.637][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.638][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.639][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:07.639][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:07.641][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.642][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.643][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-03 19:49:07.645][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.646][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:07.647][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.648][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:07.649][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.650][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.651][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.652][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.653][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:07.654][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:07.655][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.655][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-03 19:49:07.657][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:07.657][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.658][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:07.659][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.660][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:07.661][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.662][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.663][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:07.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:07.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:07.665][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:07.666][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.667][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:07.668][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:07.669][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:07.670][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:07.674][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:07.675][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.676][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.680][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.685][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.690][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.695][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.700][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.704][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.708][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.712][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.716][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.721][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.727][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.732][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.737][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.742][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.DEBUG[2025-11-03 19:49:07.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.747][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.DEBUG[2025-11-03 19:49:07.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.753][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.755][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-03 19:49:07.759][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-03 19:49:07.761][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-03 19:49:07.763][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-03 19:49:07.765][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:07.766][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-03 19:49:07.768][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:07.769][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:07.771][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-03 19:49:07.772][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-03 19:49:07.774][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:07.775][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-03 19:49:07.776][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:07.778][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:07.779][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-03 19:49:07.780][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-03 19:49:07.781][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-03 19:49:07.783][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-03 19:49:07.784][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:07.786][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-03 19:49:07.788][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-03 19:49:07.790][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-03 19:49:07.792][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-03 19:49:07.794][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-03 19:49:07.796][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-03 19:49:07.798][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-03 19:49:07.799][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-03 19:49:07.801][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-03 19:49:07.803][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-03 19:49:07.805][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-03 19:49:07.807][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-03 19:49:07.809][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-03 19:49:07.811][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-03 19:49:07.819][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-03 19:49:07.821][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-03 19:49:07.822][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-03 19:49:07.824][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-03 19:49:07.825][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-03 19:49:07.828][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-03 19:49:07.830][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-03 19:49:07.831][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-03 19:49:07.833][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-03 19:49:07.834][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-03 19:49:07.836][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-03 19:49:07.838][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-03 19:49:07.840][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-03 19:49:07.842][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-03 19:49:07.844][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-03 19:49:07.846][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-03 19:49:07.848][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-03 19:49:07.849][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-03 19:49:07.851][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-03 19:49:07.852][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-03 19:49:07.854][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-03 19:49:07.855][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-03 19:49:07.857][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-03 19:49:07.859][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-03 19:49:07.861][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-03 19:49:07.863][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-03 19:49:07.865][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-03 19:49:07.867][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-03 19:49:07.869][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-03 19:49:07.871][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-03 19:49:07.872][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-03 19:49:07.874][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-03 19:49:07.876][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-03 19:49:07.878][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:07.880][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:07.882][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-03 19:49:07.884][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-03 19:49:07.886][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-03 19:49:07.888][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-03 19:49:07.890][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-03 19:49:07.893][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-03 19:49:07.895][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-03 19:49:07.897][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-03 19:49:07.900][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-03 19:49:07.902][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-03 19:49:07.904][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-03 19:49:07.906][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-03 19:49:07.908][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-03 19:49:07.910][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-03 19:49:07.912][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-03 19:49:07.920][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-03 19:49:07.923][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:07.926][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:07.928][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.930][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.931][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[2025-11-03 19:49:07.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.942][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.950][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.959][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.968][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.976][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:07.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.983][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[2025-11-03 19:49:07.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.989][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[2025-11-03 19:49:07.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:07.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:07.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:07.995][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[2025-11-03 19:49:07.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:07.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:07.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:07.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.003][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:08.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:08.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.009][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:08.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:08.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.017][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:08.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:08.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.024][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:08.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:08.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.037][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[2025-11-03 19:49:08.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:08.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.045][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:08.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:08.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.051][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.DEBUG[2025-11-03 19:49:08.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:08.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.059][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[2025-11-03 19:49:08.062][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:08.076][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-03 19:49:08.080][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:08.082][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-03 19:49:08.083][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:08.085][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:08.086][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:08.087][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:08.088][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:08.089][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-03 19:49:08.090][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-03 19:49:08.092][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:08.093][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:08.094][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-03 19:49:08.095][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-03 19:49:08.096][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-03 19:49:08.097][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:08.098][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:08.098][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:08.098][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:08.099][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-03 19:49:08.100][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:08.101][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:08.103][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:08.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:08.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:08.106][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:08.107][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-03 19:49:08.107][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-03 19:49:08.109][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:08.110][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:08.111][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:08.112][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-03 19:49:08.112][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-03 19:49:08.120][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:08.122][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:08.124][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-03 19:49:08.126][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:08.128][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:08.129][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:08.155][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-03 19:49:08.170][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-03 19:49:08.180][biodb::testThat]
biodb.INFO [2025-11-03 19:49:08.181][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-03 19:49:08.182][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:08.183][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:08.187][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-03 19:49:08.189][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:08.192][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:08.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:08.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:08.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:08.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:08.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:08.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:08.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:08.228][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.232][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.269][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:08.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:08.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.272][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.299][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:08.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:08.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.303][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:08.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:08.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.306][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:08.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:08.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.313][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:08.314][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:08.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.316][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:08.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:08.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.323][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.324][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.327][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.334][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:08.335][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:08.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.337][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:08.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.345][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:08.346][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.349][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.350][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:08.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.355][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.355][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.358][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.363][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:08.364][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:08.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.366][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:08.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:08.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.371][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:08.372][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.374][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:08.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:08.381][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:08.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.383][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.385][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:08.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:08.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:08.471][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-03 19:49:08.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:08.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:08.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:08.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:08.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:08.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.529][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-03 19:49:08.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-03 19:49:08.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.534][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-03 19:49:08.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-03 19:49:08.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.540][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-03 19:49:08.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-03 19:49:08.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.596][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-03 19:49:08.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-03 19:49:08.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.700][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.701][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.703][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:08.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:08.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.741][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:08.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:08.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:08.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:08.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:08.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:08.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:08.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.784][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:08.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:08.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.789][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:08.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:08.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:08.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:08.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.813][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:08.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:08.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:08.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:08.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.825][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:08.827][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:08.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.829][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.831][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:08.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.862][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.863][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.866][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:08.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.894][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.895][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.915][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:08.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:08.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:08.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:08.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.926][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:08.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:08.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.931][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:08.932][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:08.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.935][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.936][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:08.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:08.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.951][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.969][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.973][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.974][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.976][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.977][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:08.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:08.994][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:08.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:08.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:08.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.000][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.006][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.012][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.013][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.014][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.016][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.045][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.050][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.051][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.054][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.055][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.085][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.086][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.087][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.118][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.119][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.121][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.141][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.142][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.144][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.150][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:09.152][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:09.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.154][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.160][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:09.161][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:09.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.163][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.169][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.170][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.172][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.178][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.179][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.181][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.187][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.190][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.197][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:09.198][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:09.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.200][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.207][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.210][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.216][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-03 19:49:09.218][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:09.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.220][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.226][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.228][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.231][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.238][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.241][ef$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:09.252][biodb::testThat]
biodb.INFO [2025-11-03 19:49:09.253][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-03 19:49:09.255][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:09.256][biodb::testThat]
biodb.DEBUG[2025-11-03 19:49:09.273][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-03 19:49:09.280][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:09.283][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:09.341][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-03 19:49:09.343][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:09.369][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:09.370][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:09.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:09.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:09.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:09.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:09.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:09.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:09.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:09.386][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.387][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.389][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.417][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:09.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:09.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.422][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.458][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:09.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:09.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.466][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:09.468][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:09.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.473][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:09.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:09.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.481][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.483][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.485][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:09.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:09.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.491][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.492][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.494][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:09.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.503][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.505][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:09.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.509][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:09.510][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:09.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.512][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.513][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:09.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:09.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.517][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.518][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.520][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.525][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.528][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:09.535][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:09.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.537][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.538][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:09.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:09.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.544][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.546][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:09.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:09.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:09.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:09.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:09.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:09.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:09.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:09.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:09.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:09.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:09.596][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-03 19:49:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-03 19:49:09.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-03 19:49:09.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-03 19:49:09.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-03 19:49:09.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-03 19:49:09.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-03 19:49:09.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:09.627][biodb::testThat]
biodb.INFO [2025-11-03 19:49:09.628][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-03 19:49:09.630][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:09.631][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:09.635][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.636][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.639][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:09.640][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-03 19:49:09.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:09.689][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-03 19:49:09.695][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-03 19:49:09.715][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:09.720][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-03 19:49:09.775][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:09.796][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 [2025-11-03 19:49:09.829][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:09.832][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:09.834][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:09.836][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-03 19:49:09.854][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.855][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:09.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.857][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.859][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:09.860][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:09.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.863][ef$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:09.869][biodb::testThat]
biodb.INFO [2025-11-03 19:49:09.870][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-03 19:49:09.872][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:09.873][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:09.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:09.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:09.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:09.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:09.992][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 [2025-11-03 19:49:09.996][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:09.999][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:10.000][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-03 19:49:10.023][biodb::testThat]
biodb.INFO [2025-11-03 19:49:10.024][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-03 19:49:10.025][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:10.026][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:10.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:10.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:10.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:10.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:10.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.086][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.090][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.096][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-03 19:49:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-03 19:49:10.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.100][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-03 19:49:10.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-03 19:49:10.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:10.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:10.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:10.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:10.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:10.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:10.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.156][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-03 19:49:10.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-03 19:49:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-03 19:49:10.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:10.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-03 19:49:10.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-03 19:49:10.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:10.181][biodb::testThat]
biodb.INFO [2025-11-03 19:49:10.182][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-03 19:49:10.184][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:10.185][biodb::testThat]
biodb.INFO [2025-11-03 19:49:10.195][biodb::testThat]
biodb.INFO [2025-11-03 19:49:10.196][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-03 19:49:10.198][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:10.199][biodb::testThat]
biodb.INFO [2025-11-03 19:49:10.216][biodb::testThat]
biodb.INFO [2025-11-03 19:49:10.217][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-03 19:49:10.219][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:10.220][biodb::testThat]
biodb.DEBUG[2025-11-03 19:49:10.225][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-03 19:49:17.324][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-03 19:49:17.915][biodb::testThat]
biodb.INFO [2025-11-03 19:49:17.916][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-03 19:49:17.917][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:17.918][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:17.926][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:17.928][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:17.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:17.930][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:17.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:17.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:17.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:17.933][ef$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:17.936][biodb::testThat]
biodb.INFO [2025-11-03 19:49:17.937][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-03 19:49:17.938][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:17.939][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:17.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:17.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:17.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:17.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:17.960][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:17.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:17.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:17.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:17.964][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:17.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:17.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:17.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:18.079][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 [2025-11-03 19:49:18.082][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:18.085][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:18.087][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:18.189][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 [2025-11-03 19:49:18.192][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:18.196][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:18.198][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-03 19:49:18.217][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-03 19:49:18.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-03 19:49:18.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:18.253][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 [2025-11-03 19:49:18.256][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:18.259][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-03 19:49:18.260][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:18.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.273][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[2025-11-03 19:49:18.274][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-03 19:49:18.332][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:18.334][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:18.338][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-03 19:49:18.340][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:18.341][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:18.343][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:18.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.355][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:18.357][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.358][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.359][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.364][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:18.365][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:18.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.367][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.393][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:18.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:18.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.397][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:18.398][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:18.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.407][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:18.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:18.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.415][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:18.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:18.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.418][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:18.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:18.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.423][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.426][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.433][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:18.434][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:18.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.436][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.438][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:18.439][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.441][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.442][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:18.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.446][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.455][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:18.456][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:18.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.459][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:18.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:18.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:18.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:18.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.469][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.471][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:18.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:18.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.475][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:18.476][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:18.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.478][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.480][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:18.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:18.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:18.532][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-03 19:49:18.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:18.564][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:18.567][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:18.569][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-03 19:49:18.570][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:18.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:18.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:18.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:18.629][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-03 19:49:18.630][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:18.632][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:18.637][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-03 19:49:18.638][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:18.639][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:18.640][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:18.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:18.655][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.656][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.658][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.663][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:18.664][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:18.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.672][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.673][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:18.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:18.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.679][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:18.680][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:18.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.681][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.683][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:18.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:18.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.686][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:18.687][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:18.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.689][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:18.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:18.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.694][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.695][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.696][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.701][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:18.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:18.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.705][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.706][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:18.707][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.709][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.710][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:18.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.715][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.717][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.719][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.725][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:18.726][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:18.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.728][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:18.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:18.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.734][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:18.735][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:18.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.737][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.738][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:18.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:18.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.742][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:18.743][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:18.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.745][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:18.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:18.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:18.795][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-03 19:49:18.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:18.835][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 [2025-11-03 19:49:18.840][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:18.844][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:18.846][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:18.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.862][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[2025-11-03 19:49:18.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:18.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.888][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:18.889][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-03 19:49:18.891][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:18.893][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:18.897][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-03 19:49:18.899][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:18.901][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:18.902][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:18.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:18.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:18.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:18.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:18.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:18.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:18.916][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.TRACE[2025-11-03 19:49:18.920][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.921][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.923][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:18.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:18.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.928][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:18.930][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:18.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.932][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.933][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:18.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:18.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.937][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.947][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:18.948][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:18.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.950][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.951][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.952][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:18.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.954][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.956][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:18.957][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:18.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.959][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.960][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:18.961][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:18.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.963][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:18.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.967][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.969][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:18.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:18.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.972][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:18.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:18.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.978][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:18.979][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:18.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.981][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.982][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:18.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:18.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.986][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:18.987][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:18.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.989][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:18.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:18.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:18.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.038][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-03 19:49:19.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:19.081][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-03 19:49:19.082][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:19.083][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:19.087][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-03 19:49:19.088][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:19.090][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:19.091][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:19.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:19.111][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.112][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.115][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.123][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.124][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.126][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.128][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.129][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.131][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.133][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.134][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.137][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.138][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.142][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.145][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.147][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.148][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:19.150][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.152][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.156][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.157][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.158][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.160][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.168][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.172][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.176][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:19.177][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:19.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.180][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.237][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-03 19:49:19.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.274][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:19.275][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-03 19:49:19.276][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:19.277][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:19.281][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-03 19:49:19.282][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:19.283][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:19.286][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:19.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.298][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[2025-11-03 19:49:19.300][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.302][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.305][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.310][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.312][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.314][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.316][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.317][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.318][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.320][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.321][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.323][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.324][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.325][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.327][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.329][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.330][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.332][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.333][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:19.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.337][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.339][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.341][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.344][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.372][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.373][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.375][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:19.381][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:19.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.382][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.425][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-03 19:49:19.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:19.463][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-03 19:49:19.464][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:19.466][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:19.472][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-03 19:49:19.473][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:19.475][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:19.477][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:19.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:19.496][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.498][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.500][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.514][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.516][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.519][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.526][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.528][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.530][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.538][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.539][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.542][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.549][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.550][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.551][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.557][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.559][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.560][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.564][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:19.565][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.566][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.567][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:19.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.571][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.572][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.574][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.580][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.585][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.588][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.612][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.616][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.618][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:19.625][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:19.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.627][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:19.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:19.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.689][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-03 19:49:19.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.714][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:19.715][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-03 19:49:19.717][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:19.718][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:19.724][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-03 19:49:19.726][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:19.727][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:19.729][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:19.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.742][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[2025-11-03 19:49:19.744][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.745][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.747][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.751][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.752][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.754][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.755][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.759][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.760][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.761][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.763][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.766][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.767][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.769][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.773][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.774][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.776][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.781][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.783][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.784][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.788][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:19.788][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.790][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.791][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:19.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.803][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.808][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:19.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.813][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.814][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.817][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:19.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:19.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.821][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.822][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.825][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:19.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:19.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.831][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:19.832][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:19.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.835][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.837][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:19.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:19.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:19.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.887][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-03 19:49:19.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:19.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:19.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:19.915][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-03 19:49:19.916][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:19.918][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:19.921][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-03 19:49:19.923][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:19.925][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:19.926][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:19.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:19.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:19.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:19.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:19.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:19.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:19.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:19.949][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.950][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.952][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:19.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:19.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.958][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.960][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.961][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.962][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:19.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:19.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.966][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.967][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.969][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:19.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:19.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.974][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.976][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.978][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:19.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:19.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.983][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.985][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.987][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:19.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.994][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:19.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:19.996][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:19.998][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:19.999][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.001][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.002][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.008][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.009][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.011][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.018][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.020][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.026][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.029][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.030][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.034][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.035][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.038][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.099][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-03 19:49:20.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.121][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[2025-11-03 19:49:20.122][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-03 19:49:20.123][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:20.125][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:20.129][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-03 19:49:20.131][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:20.133][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:20.134][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:20.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.149][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.TRACE[2025-11-03 19:49:20.152][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.153][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.154][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.159][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.160][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.162][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.163][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.167][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.168][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.169][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.171][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.174][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.177][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.182][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.183][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.186][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.189][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.192][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.193][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.194][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.206][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.207][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.213][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.214][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.217][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.224][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.225][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.227][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.233][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.234][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.236][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.238][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.242][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.243][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.246][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.248][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.301][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-03 19:49:20.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:20.328][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-03 19:49:20.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:20.331][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:20.335][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-03 19:49:20.336][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:20.337][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:20.338][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:20.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:20.364][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.374][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.375][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.376][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.383][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.384][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.386][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.387][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.393][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.394][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.397][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.403][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.404][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.407][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.415][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.417][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.419][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.421][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.424][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.426][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.431][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.433][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.435][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.443][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.444][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.447][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.454][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.455][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.457][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.459][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.463][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.464][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.466][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.467][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.524][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-03 19:49:20.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.548][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:20.549][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-03 19:49:20.550][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:20.552][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:20.556][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-03 19:49:20.557][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:20.559][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:20.560][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:20.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.571][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:20.574][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.575][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.577][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.582][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.583][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.585][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.586][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.590][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.592][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.593][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.598][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.599][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.602][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.611][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.613][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.626][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.628][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.629][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.630][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.632][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.635][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.636][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.638][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.643][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.644][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.647][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.653][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.654][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.655][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.656][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.661][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.662][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.663][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.711][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-03 19:49:20.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:20.736][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-03 19:49:20.737][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:20.745][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:20.750][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-03 19:49:20.752][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:20.754][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:20.755][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:20.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:20.771][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.773][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.775][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.782][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.783][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.785][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.786][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.791][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.792][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.793][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.795][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.798][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.799][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.801][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.802][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:20.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:20.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.807][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.808][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.810][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:20.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.817][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.818][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:20.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.820][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.822][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.823][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.826][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.827][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:20.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.832][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.836][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:20.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.843][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.846][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:20.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:20.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.852][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.853][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.855][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.857][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:20.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:20.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.860][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.863][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.864][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:20.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:20.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.918][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-03 19:49:20.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:20.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:20.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.946][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[2025-11-03 19:49:20.947][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-03 19:49:20.948][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:20.950][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:20.954][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-03 19:49:20.955][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:20.957][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:20.959][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:20.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:20.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:20.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:20.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:20.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:20.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:20.972][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:20.975][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.976][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.979][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:20.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:20.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.985][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.986][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.988][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.990][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:20.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.994][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.995][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:20.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:20.997][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:20.998][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:20.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.002][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.007][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.009][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.011][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.013][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.015][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.017][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.025][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.028][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.030][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.031][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.034][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.035][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.039][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.040][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.041][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.046][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.047][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.049][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.054][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.055][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.057][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.058][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.062][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.063][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.065][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.114][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-03 19:49:21.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:21.144][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-03 19:49:21.146][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:21.147][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:21.151][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-03 19:49:21.152][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:21.154][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:21.161][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:21.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:21.177][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.178][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.180][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.185][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.187][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.189][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.194][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.195][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.197][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.198][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.203][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.205][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.206][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.207][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.209][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.211][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.212][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.214][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.215][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.216][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.217][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.219][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.222][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.223][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.225][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.230][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.232][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.234][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.239][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.240][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.242][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.249][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.250][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.252][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.306][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-03 19:49:21.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.330][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:21.331][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-03 19:49:21.333][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:21.334][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:21.338][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-03 19:49:21.340][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:21.341][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:21.342][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:21.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.357][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:21.360][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.364][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.369][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.370][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.372][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.373][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.377][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.378][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.380][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.381][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.387][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.388][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.391][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.398][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.399][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.401][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.407][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.409][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.410][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.412][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.413][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.415][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.424][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.429][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.431][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.433][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.441][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.442][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.444][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.446][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.451][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.452][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.455][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.460][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.462][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.464][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.512][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-03 19:49:21.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:21.542][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-03 19:49:21.543][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:21.545][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:21.550][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-03 19:49:21.552][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:21.554][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:21.555][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:21.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:21.576][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.577][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.580][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.585][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.586][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.587][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.589][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.593][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.595][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.597][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.598][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.602][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.605][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.612][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.613][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.616][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.625][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.627][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.628][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.629][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.630][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.632][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.636][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.637][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.638][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.643][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.644][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.646][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.651][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.652][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.654][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.656][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.661][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.663][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.665][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.722][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-03 19:49:21.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.748][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.749][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[2025-11-03 19:49:21.751][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-03 19:49:21.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:21.755][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:21.759][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-03 19:49:21.760][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:21.761][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:21.762][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:21.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.775][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:21.778][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.783][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.790][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.793][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.795][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:21.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:21.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.799][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.800][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.803][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.804][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:21.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:21.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.809][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.811][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:21.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:21.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.816][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.817][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.819][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:21.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.832][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.834][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:21.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.837][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.838][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.839][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.842][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.844][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:21.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.850][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.851][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:21.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.857][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.858][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.860][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.861][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:21.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:21.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.867][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.868][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.871][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.872][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:21.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:21.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.876][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.877][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.879][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.880][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:21.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:21.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:21.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.930][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-03 19:49:21.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:21.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:21.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:21.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:21.964][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-03 19:49:21.965][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:21.967][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:21.971][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-03 19:49:21.973][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:21.975][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:21.976][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:21.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:21.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:21.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:21.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:21.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:21.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:21.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:21.994][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:21.995][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:21.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:21.998][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.003][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.004][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.006][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.011][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.015][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.021][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.022][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.025][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.030][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.031][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.032][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.037][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.038][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.040][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.041][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.042][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.045][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.046][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.051][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.052][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.055][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.061][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.062][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.063][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.068][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.069][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.073][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.077][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.078][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.080][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.081][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.129][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-03 19:49:22.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.158][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:22.159][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-03 19:49:22.161][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:22.162][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:22.167][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-03 19:49:22.168][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:22.169][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:22.170][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:22.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.184][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.TRACE[2025-11-03 19:49:22.187][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.188][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.190][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.197][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.198][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.200][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.202][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.206][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.207][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.209][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.210][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.214][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.215][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.225][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.231][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.232][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.234][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.240][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.241][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.243][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.244][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.245][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.247][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.249][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.255][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.256][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.259][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.266][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.267][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.269][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.277][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.278][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.281][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.283][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.288][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.289][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.292][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.293][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.338][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-03 19:49:22.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:22.377][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-03 19:49:22.378][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:22.380][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:22.383][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-03 19:49:22.384][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:22.385][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:22.386][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:22.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:22.402][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.403][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.405][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.410][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.411][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.413][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.418][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.419][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.420][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.422][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.425][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.426][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.428][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.433][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.434][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.435][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.440][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.441][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.443][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.444][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.448][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.450][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.455][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.458][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.463][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.465][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.471][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.472][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.474][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.479][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.486][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.488][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.490][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.540][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-03 19:49:22.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.566][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.DEBUG[2025-11-03 19:49:22.567][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-03 19:49:22.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:22.570][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:22.574][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-03 19:49:22.575][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:22.576][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:22.577][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:22.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.592][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:22.595][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.597][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.599][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.607][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.608][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.611][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.612][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:22.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:22.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.617][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.627][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:22.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:22.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.633][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.635][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.637][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:22.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:22.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.644][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.645][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.647][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.648][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:22.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.652][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.653][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:22.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.654][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.656][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.657][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.658][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.659][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:22.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.663][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.664][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.666][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:22.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.670][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.671][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.673][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:22.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:22.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.681][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.683][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.685][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.687][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:22.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.692][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.693][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.696][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.698][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:22.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:22.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:22.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:22.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:22.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.749][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-03 19:49:22.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:22.798][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:22.801][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:22.804][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:22.805][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:22.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:22.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:22.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:22.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:22.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.956][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:22.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:22.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:22.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:22.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:22.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:22.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:22.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:22.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:22.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:22.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:22.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:22.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:23.492][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:23.494][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:23.497][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-03 19:49:23.499][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:23.503][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:23.506][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:23.509][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-03 19:49:23.510][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:23.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:23.527][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-03 19:49:23.527][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:23.529][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:23.533][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-03 19:49:23.535][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:23.536][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:23.537][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:23.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:23.555][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.556][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.558][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.563][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:23.564][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:23.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.566][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.568][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:23.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:23.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.572][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:23.574][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:23.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.576][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.578][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:23.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:23.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.582][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:23.583][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:23.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.585][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:23.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:23.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.590][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.591][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.593][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.598][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:23.599][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:23.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.602][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.603][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:23.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:23.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.607][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:23.608][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.617][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.618][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:23.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.623][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.626][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.633][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:23.635][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:23.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.637][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:23.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:23.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.643][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:23.643][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:23.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.645][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.646][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:23.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:23.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.650][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:23.652][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:23.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.654][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.655][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:23.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.711][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-03 19:49:23.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.734][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.738][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:23.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.774][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[2025-11-03 19:49:23.775][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-03 19:49:23.776][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:23.778][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:23.781][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-03 19:49:23.782][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:23.784][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:23.785][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:23.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:23.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:23.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:23.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:23.798][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:23.801][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.802][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.804][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.812][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:23.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:23.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.815][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.817][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:23.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:23.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.821][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:23.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:23.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.824][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:23.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:23.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.830][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:23.831][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:23.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.833][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:23.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:23.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.838][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.839][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.842][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:23.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.847][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:23.848][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:23.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.850][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.851][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:23.853][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.854][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.856][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:23.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.860][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.863][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.869][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:23.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:23.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.872][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:23.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:23.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.877][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:23.878][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:23.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.880][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.889][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:23.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:23.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:23.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:23.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:23.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:23.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:23.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:23.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:23.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:23.944][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-03 19:49:23.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:23.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:23.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:23.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:23.982][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:23.985][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:23.987][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:23.989][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:23.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:23.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:23.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:24.662][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:24.665][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:24.668][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-03 19:49:24.669][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:24.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:24.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:24.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:24.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:24.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:24.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:24.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:24.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:24.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:24.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:24.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:24.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.471][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:25.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:25.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:25.487][biodb::testThat]
biodb.INFO [2025-11-03 19:49:25.488][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-03 19:49:25.489][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:25.490][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:25.494][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-03 19:49:25.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-03 19:49:25.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-03 19:49:25.535][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:25.539][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:25.541][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-03 19:49:25.543][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:25.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:25.574][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:25.577][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:25.579][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-03 19:49:25.580][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:25.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:25.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.646][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-03 19:49:25.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.674][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:25.675][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:25.677][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:25.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.682][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.687][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.690][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.694][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.696][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:25.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.722][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-03 19:49:25.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.741][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.TRACE[2025-11-03 19:49:25.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.753][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:25.754][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:25.756][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:25.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.760][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.763][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.768][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.770][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.771][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.773][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.774][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.776][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.778][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:25.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.803][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-03 19:49:25.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:25.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.826][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:25.828][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:25.829][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:25.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.834][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.836][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.837][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.840][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.841][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.842][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:25.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.846][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.847][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:25.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:25.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.860][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-03 19:49:25.861][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-03 19:49:25.862][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-03 19:49:25.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:25.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:25.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:25.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:25.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:25.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:25.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-03 19:49:25.966][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:25.970][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:25.972][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-03 19:49:25.973][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:25.977][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:25.980][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:25.983][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-03 19:49:25.985][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:25.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:25.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:25.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:25.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:25.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.099][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-03 19:49:26.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.157][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:26.159][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:26.160][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:26.162][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.163][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.165][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.167][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.172][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.173][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.174][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.179][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.181][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:26.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.197][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-03 19:49:26.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.211][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:26.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.266][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:26.267][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:26.268][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:26.269][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.273][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.274][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.276][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.278][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.280][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.294][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.298][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.301][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.302][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:26.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.320][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-03 19:49:26.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.348][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.349][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:26.350][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:26.352][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:26.353][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.354][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.358][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.359][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.361][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.364][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.366][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.371][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.373][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:26.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.388][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-03 19:49:26.389][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-03 19:49:26.390][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-03 19:49:26.400][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:26.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:26.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:26.411][biodb::testThat]
biodb.INFO [2025-11-03 19:49:26.412][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-03 19:49:26.413][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:26.414][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:26.417][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-03 19:49:26.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-03 19:49:26.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-03 19:49:26.456][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:26.460][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:26.462][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-03 19:49:26.463][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:26.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:26.496][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:26.498][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:26.501][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-03 19:49:26.502][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:26.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:26.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.573][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-03 19:49:26.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.597][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.599][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:26.600][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:26.601][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:26.603][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.604][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.605][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.607][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.610][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.612][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.614][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.616][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.619][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.620][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:26.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.635][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-03 19:49:26.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.649][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:26.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.658][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.659][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:26.660][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:26.661][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:26.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.663][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.666][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.671][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.677][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.679][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:26.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.693][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-03 19:49:26.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.717][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.718][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:26.719][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:26.720][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:26.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.724][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.729][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.732][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.736][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.737][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:26.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.753][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-03 19:49:26.754][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-03 19:49:26.756][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-03 19:49:26.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-03 19:49:26.808][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:26.810][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:26.812][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-03 19:49:26.813][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:26.816][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:26.819][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:26.821][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-03 19:49:26.823][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:26.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:26.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:26.915][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-03 19:49:26.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:26.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.940][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.941][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:26.941][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:26.942][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:26.943][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.949][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.952][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.954][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.957][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:26.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.961][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.962][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:26.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:26.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:26.984][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-03 19:49:26.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:26.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:26.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:26.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:26.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:26.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:26.998][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:27.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.010][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.011][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.012][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.012][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.018][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.019][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.023][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.025][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.030][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.031][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.047][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-03 19:49:27.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.073][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.074][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.076][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.077][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.079][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.081][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.084][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.086][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.087][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.088][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.093][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.094][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.109][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-03 19:49:27.110][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-03 19:49:27.111][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-03 19:49:27.123][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:27.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:27.134][biodb::testThat]
biodb.INFO [2025-11-03 19:49:27.136][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-03 19:49:27.137][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:27.138][biodb::testThat]
biodb.TRACE[2025-11-03 19:49:27.142][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-03 19:49:27.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-03 19:49:27.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:27.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-03 19:49:27.190][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:27.194][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:27.196][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-03 19:49:27.198][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:27.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-03 19:49:27.229][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:27.233][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:27.235][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-03 19:49:27.236][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:27.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:27.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:27.295][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-03 19:49:27.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.317][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.318][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.319][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.320][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.321][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.323][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.324][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.326][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.330][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.332][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.334][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.337][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.351][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-03 19:49:27.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.362][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[2025-11-03 19:49:27.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.378][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.379][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.381][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.382][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.382][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.385][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.387][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.388][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.390][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.392][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.393][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.394][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.395][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.396][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.398][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.399][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.414][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-03 19:49:27.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.436][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.437][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.438][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.440][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.440][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.442][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.446][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.447][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.451][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.452][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.453][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.455][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.456][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.473][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-03 19:49:27.474][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-03 19:49:27.475][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-03 19:49:27.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:27.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-03 19:49:27.538][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:27.541][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:27.543][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-03 19:49:27.544][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:27.547][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:27.549][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:27.552][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-03 19:49:27.553][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:27.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:27.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:27.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:27.637][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-03 19:49:27.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.663][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.664][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.665][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.666][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.670][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.671][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.672][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.674][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.676][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.677][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.679][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.681][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.682][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.698][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-03 19:49:27.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.712][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.723][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.724][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.725][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.728][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.729][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.731][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.735][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.738][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.745][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.769][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-03 19:49:27.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.797][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-03 19:49:27.799][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-03 19:49:27.800][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-03 19:49:27.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.805][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.810][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.811][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.812][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-03 19:49:27.813][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.814][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.817][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-03 19:49:27.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.832][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-03 19:49:27.834][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-03 19:49:27.835][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-03 19:49:27.861][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:27.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-03 19:49:27.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:27.870][biodb::testThat]
biodb.INFO [2025-11-03 19:49:27.871][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-11-03 19:49:27.872][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:27.874][biodb::testThat]
biodb.DEBUG[2025-11-03 19:49:27.876][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-03 19:49:27.877][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:27.879][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:27.882][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-03 19:49:27.883][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:27.885][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:27.886][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:27.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:27.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:27.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:27.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:27.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:27.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:27.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:27.902][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:27.904][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:27.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.906][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:27.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:27.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.913][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:27.915][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:27.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.917][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.919][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:27.920][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:27.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.923][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.925][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:27.926][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:27.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.928][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.929][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:27.931][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:27.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.933][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.934][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:27.935][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:27.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.937][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.939][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:27.940][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:27.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.943][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.945][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.946][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:27.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.948][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.950][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:27.951][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:27.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.953][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.955][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:27.956][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:27.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.958][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.961][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:27.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:27.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.965][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:27.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:27.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:27.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:27.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:27.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:27.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:27.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:27.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:27.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:27.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:28.011][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-03 19:49:28.012][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-03 19:49:28.024][biodb::testThat]
biodb.INFO [2025-11-03 19:49:28.026][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-03 19:49:28.027][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:28.028][biodb::testThat]
biodb.DEBUG[2025-11-03 19:49:28.039][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-03 19:49:28.040][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-03 19:49:28.041][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-03 19:49:28.043][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:28.046][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-03 19:49:28.050][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-03 19:49:28.053][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-03 19:49:28.054][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:28.056][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-03 19:49:28.058][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:28.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:28.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:28.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:28.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:28.074][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.076][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.078][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.083][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:28.085][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:28.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.087][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.089][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:28.089][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:28.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.091][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:28.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:28.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.097][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.099][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.103][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.104][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.106][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.108][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.109][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:28.110][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:28.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.112][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.113][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.114][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.117][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.118][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:28.120][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:28.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.122][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.123][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:28.124][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:28.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.127][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.128][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:28.130][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:28.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.131][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:28.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:28.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:28.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:28.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:28.182][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.189][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:28.190][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:28.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.192][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.193][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:28.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:28.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.197][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:28.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:28.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.199][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.201][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:28.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:28.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.204][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:28.205][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:28.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.207][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:28.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:28.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.212][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.214][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.220][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.222][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.223][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.231][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:28.232][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:28.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.234][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.236][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:28.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:28.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.239][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.242][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.247][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:28.248][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:28.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.250][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:28.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:28.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.255][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:28.257][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:28.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.258][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.260][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:28.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:28.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.263][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:28.264][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:28.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.266][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.268][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:28.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:28.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:28.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:28.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:28.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:28.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-03 19:49:28.321][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.322][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.324][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.331][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:28.333][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:28.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.335][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:28.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:28.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.340][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:28.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:28.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.343][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:28.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:28.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.348][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:28.349][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:28.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.351][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:28.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:28.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.356][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.357][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.359][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:28.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.365][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.366][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.370][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:28.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.375][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:28.376][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:28.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.378][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.379][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:28.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:28.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.383][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.384][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.386][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.391][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:28.392][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:28.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.394][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:28.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:28.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.401][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:28.402][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:28.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.404][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.406][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:28.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:28.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.411][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:28.413][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:28.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.415][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.417][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:28.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:28.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:28.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:28.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:28.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:28.491][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-03 19:49:28.491][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-03 19:49:28.492][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-03 19:49:28.509][biodb::testThat]
biodb.INFO [2025-11-03 19:49:28.510][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-11-03 19:49:28.511][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:28.512][biodb::testThat]
biodb.INFO [2025-11-03 19:49:28.545][biodb::testThat]
biodb.INFO [2025-11-03 19:49:28.546][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-11-03 19:49:28.547][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:28.549][biodb::testThat]
biodb.INFO [2025-11-03 19:49:28.561][biodb::testThat]
biodb.INFO [2025-11-03 19:49:28.562][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-11-03 19:49:28.563][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:28.564][biodb::testThat]
sched.DEBUG[2025-11-03 19:49:28.567][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:28.569][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:28.574][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-03 19:49:28.576][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-03 19:49:28.592][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:28.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:28.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.595][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:28.596][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.598][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:28.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:28.601][ef$get] fields variable is a list.
biodb.INFO [2025-11-03 19:49:28.602][biodb::testThat]
biodb.INFO [2025-11-03 19:49:28.603][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-03 19:49:28.605][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:28.605][biodb::testThat]
biodb.ERROR[2025-11-03 19:49:28.621][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-03 19:49:28.640][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-03 19:49:28.654][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-03 19:49:28.656][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-03 19:49:28.657][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-03 19:49:28.658][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:28.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:28.660][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.661][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-03 19:49:28.672][biodb::testContext]
biodb.INFO [2025-11-03 19:49:28.673][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:28.674][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-03 19:49:28.675][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:28.676][biodb::testContext]
biodb.INFO [2025-11-03 19:49:28.678][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:28.679][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:28.683][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:28.685][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-03 19:49:28.686][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-03 19:49:28.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.689][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.690][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-03 19:49:28.690][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-03 19:49:28.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.695][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-03 19:49:28.696][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-03 19:49:28.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.700][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.701][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-03 19:49:28.702][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-03 19:49:28.703][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-03 19:49:28.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.707][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-03 19:49:28.708][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-03 19:49:28.709][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-03 19:49:28.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.712][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.713][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-03 19:49:28.714][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-03 19:49:28.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.718][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-03 19:49:28.719][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-03 19:49:28.720][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-03 19:49:28.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.723][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.724][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-03 19:49:28.725][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-03 19:49:28.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.730][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-03 19:49:28.731][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-03 19:49:28.732][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-03 19:49:28.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.736][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.737][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:28.739][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-03 19:49:28.740][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-03 19:49:28.741][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-03 19:49:28.742][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-03 19:49:28.744][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-03 19:49:28.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.748][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-03 19:49:28.750][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-03 19:49:28.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.753][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.754][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-03 19:49:28.756][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-03 19:49:28.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.760][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-03 19:49:28.762][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-03 19:49:28.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.765][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.766][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-03 19:49:28.768][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-03 19:49:28.769][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-03 19:49:28.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.774][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:28.774][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-03 19:49:28.800][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-03 19:49:28.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.804][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.805][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-03 19:49:28.807][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-03 19:49:28.808][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-03 19:49:28.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:28.812][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-03 19:49:28.814][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.815][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-03 19:49:28.816][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.817][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:28.819][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.820][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.821][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.822][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.823][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:28.824][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:28.825][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.826][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-03 19:49:28.827][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:28.828][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.829][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.830][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:28.830][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:28.830][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:28.830][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:28.830][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:28.831][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:28.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.833][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.834][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:28.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.838][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.839][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.840][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:28.841][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:28.842][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.843][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.844][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-03 19:49:28.846][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.847][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:28.848][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.849][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:28.850][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.851][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.852][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.853][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.854][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:28.855][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:28.855][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.856][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-03 19:49:28.857][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:28.858][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.860][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.860][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:28.860][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:28.860][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:28.860][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:28.860][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:28.862][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:28.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.864][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.865][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:28.866][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.867][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.869][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.870][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.871][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:28.872][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:28.873][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.874][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.875][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-03 19:49:28.877][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.877][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-03 19:49:28.879][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.880][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:28.881][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.882][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.883][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.884][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.885][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:28.886][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:28.887][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.888][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-03 19:49:28.889][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:28.890][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.891][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.891][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.892][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:28.893][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.894][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.895][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:28.896][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.897][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.898][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.899][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:28.900][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:28.901][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.903][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.904][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-03 19:49:28.906][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.907][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:28.908][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.909][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:28.910][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.911][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.912][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.913][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.914][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:28.915][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:28.916][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.926][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-03 19:49:28.927][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:28.928][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.929][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:28.930][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.932][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:28.933][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.934][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.935][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:28.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:28.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:28.937][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:28.938][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.939][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:28.940][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:28.941][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:28.942][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:28.944][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:28.945][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.946][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[2025-11-03 19:49:28.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.951][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.DEBUG[2025-11-03 19:49:28.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.957][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.963][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[2025-11-03 19:49:28.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.967][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.971][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.976][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.981][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.986][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.991][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:28.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:28.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:28.997][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:28.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:28.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.002][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.DEBUG[2025-11-03 19:49:29.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.007][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.011][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.016][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.022][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.025][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[2025-11-03 19:49:29.026][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-03 19:49:29.028][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-03 19:49:29.029][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-03 19:49:29.030][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-03 19:49:29.032][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:29.033][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-03 19:49:29.034][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:29.035][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:29.037][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-03 19:49:29.038][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-03 19:49:29.039][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:29.040][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-03 19:49:29.041][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:29.043][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:29.044][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-03 19:49:29.045][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-03 19:49:29.046][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-03 19:49:29.047][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-03 19:49:29.049][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:29.050][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-03 19:49:29.052][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-03 19:49:29.054][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-03 19:49:29.056][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-03 19:49:29.058][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-03 19:49:29.059][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-03 19:49:29.060][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-03 19:49:29.062][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-03 19:49:29.063][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-03 19:49:29.064][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-03 19:49:29.066][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-03 19:49:29.068][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-03 19:49:29.070][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-03 19:49:29.072][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-03 19:49:29.074][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-03 19:49:29.075][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-03 19:49:29.077][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-03 19:49:29.078][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-03 19:49:29.079][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-03 19:49:29.081][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-03 19:49:29.082][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-03 19:49:29.084][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-03 19:49:29.086][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-03 19:49:29.087][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-03 19:49:29.089][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-03 19:49:29.091][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-03 19:49:29.092][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-03 19:49:29.094][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-03 19:49:29.095][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-03 19:49:29.096][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-03 19:49:29.098][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-03 19:49:29.099][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-03 19:49:29.101][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-03 19:49:29.102][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-03 19:49:29.104][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-03 19:49:29.105][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-03 19:49:29.106][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-03 19:49:29.108][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-03 19:49:29.109][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-03 19:49:29.110][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-03 19:49:29.111][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-03 19:49:29.113][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-03 19:49:29.114][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-03 19:49:29.116][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-03 19:49:29.117][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-03 19:49:29.118][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-03 19:49:29.120][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-03 19:49:29.121][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:29.122][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:29.124][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-03 19:49:29.125][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-03 19:49:29.126][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-03 19:49:29.127][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-03 19:49:29.129][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-03 19:49:29.130][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-03 19:49:29.132][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-03 19:49:29.134][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-03 19:49:29.136][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-03 19:49:29.137][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-03 19:49:29.139][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-03 19:49:29.141][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-03 19:49:29.142][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-03 19:49:29.143][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-03 19:49:29.145][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-03 19:49:29.147][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-03 19:49:29.149][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:29.151][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:29.152][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.154][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.156][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.163][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.171][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.178][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.185][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.191][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[2025-11-03 19:49:29.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.197][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.203][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.209][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.217][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.DEBUG[2025-11-03 19:49:29.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.225][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.231][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[2025-11-03 19:49:29.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.237][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.243][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.250][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.262][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[2025-11-03 19:49:29.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.268][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.270][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:29.273][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-03 19:49:29.275][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.277][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.277][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.278][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:29.279][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.280][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.281][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.282][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-03 19:49:29.284][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-03 19:49:29.285][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:29.286][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.287][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-03 19:49:29.288][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-03 19:49:29.289][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-03 19:49:29.290][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.291][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:29.291][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:29.291][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:29.292][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-03 19:49:29.293][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.294][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.295][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:29.296][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.297][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.297][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.299][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-03 19:49:29.299][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-03 19:49:29.300][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:29.301][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:29.301][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.303][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-03 19:49:29.303][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-03 19:49:29.304][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:29.306][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:29.307][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-03 19:49:29.308][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:29.310][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:29.312][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:29.315][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-03 19:49:29.319][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-03 19:49:29.321][biodb::testThat]
biodb.INFO [2025-11-03 19:49:29.323][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-11-03 19:49:29.324][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:29.325][biodb::testThat]
sched.DEBUG[2025-11-03 19:49:29.329][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-03 19:49:29.331][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.336][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-03 19:49:29.337][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:29.341][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 [2025-11-03 19:49:29.344][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.346][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-03 19:49:29.348][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.361][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".
sched.DEBUG[2025-11-03 19:49:29.363][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 [2025-11-03 19:49:29.365][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.367][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-03 19:49:29.369][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.384][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.415][FUN] Functions in observer 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[2025-11-03 19:49:29.421][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 [2025-11-03 19:49:29.425][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.428][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-03 19:49:29.429][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.442][FUN] Functions in observer 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[2025-11-03 19:49:29.444][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 [2025-11-03 19:49:29.446][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.449][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-03 19:49:29.450][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.464][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.478][FUN] Functions in observer 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[2025-11-03 19:49:29.482][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 [2025-11-03 19:49:29.486][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.488][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-03 19:49:29.489][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.505][FUN] Functions in observer 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[2025-11-03 19:49:29.507][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 [2025-11-03 19:49:29.511][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.513][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-03 19:49:29.515][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.527][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".
sched.DEBUG[2025-11-03 19:49:29.529][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 [2025-11-03 19:49:29.532][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.535][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-03 19:49:29.536][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.550][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.INFO [2025-11-03 19:49:29.558][biodb::testThat]
biodb.INFO [2025-11-03 19:49:29.560][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-11-03 19:49:29.561][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:29.562][biodb::testThat]
sched.DEBUG[2025-11-03 19:49:29.565][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 [2025-11-03 19:49:29.568][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.580][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-03 19:49:29.581][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.596][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".
sched.DEBUG[2025-11-03 19:49:29.601][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 [2025-11-03 19:49:29.604][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:29.606][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-03 19:49:29.607][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:29.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:29.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.619][FUN] Functions in observer BiodbConfig: [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 [2025-11-03 19:49:29.626][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-03 19:49:29.628][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-03 19:49:29.629][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-03 19:49:29.630][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:29.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:29.632][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.634][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.634][FUN] Functions in observer BiodbConfig: [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 [2025-11-03 19:49:29.638][biodb::testContext]
biodb.INFO [2025-11-03 19:49:29.639][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:29.640][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-03 19:49:29.641][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:29.642][biodb::testContext]
biodb.INFO [2025-11-03 19:49:29.644][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:29.645][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:29.649][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:29.650][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-03 19:49:29.651][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-03 19:49:29.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.655][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-03 19:49:29.656][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-03 19:49:29.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.658][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.659][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-03 19:49:29.660][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-03 19:49:29.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.665][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-03 19:49:29.665][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-03 19:49:29.666][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-03 19:49:29.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.669][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.670][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-03 19:49:29.671][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-03 19:49:29.671][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-03 19:49:29.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.675][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-03 19:49:29.676][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-03 19:49:29.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.678][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.679][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-03 19:49:29.680][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-03 19:49:29.681][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-03 19:49:29.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.684][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-03 19:49:29.686][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-03 19:49:29.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.688][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.689][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-03 19:49:29.690][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-03 19:49:29.691][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-03 19:49:29.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.694][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:29.695][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-03 19:49:29.696][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-03 19:49:29.697][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-03 19:49:29.698][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-03 19:49:29.699][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-03 19:49:29.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.701][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.702][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-03 19:49:29.703][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-03 19:49:29.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.707][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-03 19:49:29.708][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-03 19:49:29.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.711][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.712][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-03 19:49:29.713][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-03 19:49:29.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.716][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-03 19:49:29.718][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-03 19:49:29.719][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-03 19:49:29.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.722][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.723][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:29.724][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-03 19:49:29.750][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-03 19:49:29.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:29.756][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-03 19:49:29.757][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-03 19:49:29.759][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-03 19:49:29.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.763][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.764][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-03 19:49:29.766][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.767][self$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[2025-11-03 19:49:29.768][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.768][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:29.769][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.770][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.771][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.772][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.773][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:29.774][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:29.776][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.777][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-03 19:49:29.778][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:29.780][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.781][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.782][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:29.782][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:29.782][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:29.782][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:29.782][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:29.783][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:29.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:29.788][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.789][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.790][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.791][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.793][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:29.793][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:29.794][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.795][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.797][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-03 19:49:29.799][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.800][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:29.801][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.802][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:29.803][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.804][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.805][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.806][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.807][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:29.808][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:29.809][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.810][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-03 19:49:29.811][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:29.812][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.813][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.814][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:29.814][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:29.814][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:29.814][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:29.814][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:29.816][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:29.817][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.818][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.819][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:29.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.821][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.822][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.823][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.824][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:29.825][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:29.826][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.827][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.828][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-03 19:49:29.830][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.831][self$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[2025-11-03 19:49:29.832][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.833][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:29.834][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.835][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.836][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.837][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.838][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:29.840][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:29.841][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.842][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-03 19:49:29.843][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:29.844][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.845][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.846][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.847][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:29.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.850][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:29.851][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.853][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.854][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.856][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:29.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:29.857][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.858][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.860][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-03 19:49:29.862][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.863][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:29.865][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.866][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:29.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.870][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.871][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.873][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:29.874][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:29.876][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.877][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-03 19:49:29.878][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:29.879][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.880][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:29.881][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.882][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:29.882][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.884][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:29.885][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:29.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:29.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:29.889][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.890][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:29.891][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:29.892][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:29.893][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:29.895][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:29.896][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.897][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.901][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[2025-11-03 19:49:29.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.906][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[2025-11-03 19:49:29.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.910][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.915][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.920][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.925][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.929][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.934][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.939][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.DEBUG[2025-11-03 19:49:29.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.944][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.955][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.961][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.965][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.970][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[2025-11-03 19:49:29.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.975][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:29.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:29.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:29.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:29.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:29.979][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[2025-11-03 19:49:29.980][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-03 19:49:29.981][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-03 19:49:29.982][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-03 19:49:29.984][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-03 19:49:29.986][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:29.988][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-03 19:49:29.990][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:29.992][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:29.993][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-03 19:49:29.994][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-03 19:49:29.995][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:29.997][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-03 19:49:29.998][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:30.000][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:30.001][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-03 19:49:30.003][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-03 19:49:30.004][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-03 19:49:30.006][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-03 19:49:30.008][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:30.010][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-03 19:49:30.011][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-03 19:49:30.013][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-03 19:49:30.015][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-03 19:49:30.017][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-03 19:49:30.018][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-03 19:49:30.020][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-03 19:49:30.021][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-03 19:49:30.022][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-03 19:49:30.024][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-03 19:49:30.026][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-03 19:49:30.027][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-03 19:49:30.029][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-03 19:49:30.031][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-03 19:49:30.032][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-03 19:49:30.033][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-03 19:49:30.035][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-03 19:49:30.037][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-03 19:49:30.038][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-03 19:49:30.040][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-03 19:49:30.042][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-03 19:49:30.044][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-03 19:49:30.045][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-03 19:49:30.047][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-03 19:49:30.048][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-03 19:49:30.050][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-03 19:49:30.051][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-03 19:49:30.053][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-03 19:49:30.054][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-03 19:49:30.056][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-03 19:49:30.057][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-03 19:49:30.058][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-03 19:49:30.060][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-03 19:49:30.061][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-03 19:49:30.062][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-03 19:49:30.063][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-03 19:49:30.064][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-03 19:49:30.066][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-03 19:49:30.067][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-03 19:49:30.069][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-03 19:49:30.070][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-03 19:49:30.072][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-03 19:49:30.074][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-03 19:49:30.075][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-03 19:49:30.077][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-03 19:49:30.079][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-03 19:49:30.081][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-03 19:49:30.083][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:30.085][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:30.086][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-03 19:49:30.088][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-03 19:49:30.090][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-03 19:49:30.092][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-03 19:49:30.093][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-03 19:49:30.094][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-03 19:49:30.095][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-03 19:49:30.096][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-03 19:49:30.097][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-03 19:49:30.099][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-03 19:49:30.100][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-03 19:49:30.101][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-03 19:49:30.103][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-03 19:49:30.104][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-03 19:49:30.106][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-03 19:49:30.107][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-03 19:49:30.109][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:30.110][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:30.111][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.113][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.114][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.121][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[2025-11-03 19:49:30.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.128][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[2025-11-03 19:49:30.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.134][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.140][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.146][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[2025-11-03 19:49:30.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.152][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.158][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.165][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.171][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.178][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.185][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.194][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.199][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[2025-11-03 19:49:30.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.205][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.211][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.217][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.DEBUG[2025-11-03 19:49:30.219][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:30.220][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-03 19:49:30.222][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.223][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.224][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.225][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:30.226][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.227][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.228][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.229][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-03 19:49:30.230][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-03 19:49:30.231][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:30.232][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.233][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-03 19:49:30.234][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-03 19:49:30.235][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-03 19:49:30.237][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.238][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:30.238][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:30.238][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:30.238][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-03 19:49:30.239][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.240][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.241][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:30.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.244][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.246][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-03 19:49:30.246][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-03 19:49:30.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:30.248][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:30.249][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.250][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-03 19:49:30.250][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-03 19:49:30.251][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:30.252][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:30.254][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-03 19:49:30.255][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:30.257][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:30.259][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:30.264][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-03 19:49:30.269][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-03 19:49:30.271][biodb::testThat]
biodb.INFO [2025-11-03 19:49:30.272][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-03 19:49:30.273][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:30.273][biodb::testThat]
sched.DEBUG[2025-11-03 19:49:30.276][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-03 19:49:30.284][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:30.288][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-03 19:49:30.289][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:30.292][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-03 19:49:30.294][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:30.297][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-03 19:49:30.298][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-03 19:49:30.307][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-03 19:49:30.308][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-03 19:49:30.309][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-03 19:49:30.309][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.312][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.314][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-03 19:49:30.320][biodb::testContext]
biodb.INFO [2025-11-03 19:49:30.321][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:30.323][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-03 19:49:30.324][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-03 19:49:30.325][biodb::testContext]
biodb.INFO [2025-11-03 19:49:30.327][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:30.329][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:30.334][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:30.335][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-03 19:49:30.336][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-03 19:49:30.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.340][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.341][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-03 19:49:30.342][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-03 19:49:30.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.345][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-03 19:49:30.346][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-03 19:49:30.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.349][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.350][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-03 19:49:30.351][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-03 19:49:30.352][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-03 19:49:30.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.355][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-03 19:49:30.356][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-03 19:49:30.357][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-03 19:49:30.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.361][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[2025-11-03 19:49:30.362][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-03 19:49:30.363][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-03 19:49:30.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.367][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-03 19:49:30.368][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-03 19:49:30.369][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-03 19:49:30.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.371][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[2025-11-03 19:49:30.372][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-03 19:49:30.373][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-03 19:49:30.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.376][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-03 19:49:30.377][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-03 19:49:30.379][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-03 19:49:30.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.381][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.382][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:30.383][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-03 19:49:30.384][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-03 19:49:30.385][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-03 19:49:30.387][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-03 19:49:30.388][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-03 19:49:30.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.393][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-03 19:49:30.394][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-03 19:49:30.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.398][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.399][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-03 19:49:30.400][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-03 19:49:30.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.403][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-03 19:49:30.404][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-03 19:49:30.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.407][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.DEBUG[2025-11-03 19:49:30.407][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-03 19:49:30.408][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-03 19:49:30.409][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-03 19:49:30.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.413][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-03 19:49:30.414][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-03 19:49:30.435][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-03 19:49:30.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.438][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.DEBUG[2025-11-03 19:49:30.439][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-03 19:49:30.440][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-03 19:49:30.442][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-03 19:49:30.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-03 19:49:30.447][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-03 19:49:30.449][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.451][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-03 19:49:30.452][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.453][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:30.454][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.455][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.456][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.457][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.458][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:30.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:30.460][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.461][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-03 19:49:30.463][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:30.464][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.465][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.466][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:30.466][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:30.466][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:30.466][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:30.466][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:30.467][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:30.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.469][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.470][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:30.471][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.472][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.474][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.475][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.476][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:30.477][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:30.478][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.480][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.481][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-03 19:49:30.482][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.484][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:30.485][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.486][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:30.487][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.488][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.490][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.490][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.491][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:30.492][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:30.493][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.494][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-03 19:49:30.495][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:30.496][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.497][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.499][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:30.499][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:30.499][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:30.499][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-03 19:49:30.499][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-03 19:49:30.500][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:30.501][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.502][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.504][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:30.504][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.506][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.507][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.508][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:30.509][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:30.510][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.511][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.512][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-03 19:49:30.515][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.516][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-03 19:49:30.518][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.519][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:30.520][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.522][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.523][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.524][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.525][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-03 19:49:30.526][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:30.527][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.528][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-03 19:49:30.529][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:30.530][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.531][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.532][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.533][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:30.534][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.535][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.536][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:30.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.539][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.540][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.541][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:30.542][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:30.543][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.544][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.545][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-03 19:49:30.547][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.548][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-03 19:49:30.549][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.551][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:30.552][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.553][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.554][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.555][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.556][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-03 19:49:30.558][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:30.559][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.561][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-03 19:49:30.562][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:30.563][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.565][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.566][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.567][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-03 19:49:30.568][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.569][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.570][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:30.571][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.572][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.574][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.575][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:30.576][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:30.577][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.578][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-03 19:49:30.579][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:30.580][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.581][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.585][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.589][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.594][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.599][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.603][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.608][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.612][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".
biodb.DEBUG[2025-11-03 19:49:30.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.617][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.623][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[2025-11-03 19:49:30.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.629][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[2025-11-03 19:49:30.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.634][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.639][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.643][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[2025-11-03 19:49:30.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.657][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.662][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.666][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.668][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-03 19:49:30.669][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-03 19:49:30.670][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-03 19:49:30.671][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-03 19:49:30.672][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:30.674][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-03 19:49:30.675][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:30.676][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:30.677][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-03 19:49:30.679][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-03 19:49:30.681][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:30.682][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-03 19:49:30.684][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-03 19:49:30.685][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-03 19:49:30.686][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-03 19:49:30.687][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-03 19:49:30.688][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-03 19:49:30.689][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-03 19:49:30.690][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:30.692][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-03 19:49:30.693][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-03 19:49:30.694][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-03 19:49:30.695][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-03 19:49:30.697][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-03 19:49:30.698][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-03 19:49:30.699][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-03 19:49:30.700][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-03 19:49:30.701][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-03 19:49:30.702][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-03 19:49:30.704][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-03 19:49:30.705][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-03 19:49:30.706][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-03 19:49:30.707][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-03 19:49:30.708][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-03 19:49:30.709][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-03 19:49:30.711][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-03 19:49:30.712][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-03 19:49:30.713][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-03 19:49:30.714][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-03 19:49:30.715][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-03 19:49:30.717][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-03 19:49:30.719][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-03 19:49:30.721][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-03 19:49:30.722][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-03 19:49:30.724][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-03 19:49:30.726][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-03 19:49:30.727][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-03 19:49:30.728][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-03 19:49:30.730][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-03 19:49:30.731][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-03 19:49:30.732][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-03 19:49:30.734][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-03 19:49:30.735][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-03 19:49:30.737][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-03 19:49:30.738][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-03 19:49:30.739][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-03 19:49:30.740][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-03 19:49:30.742][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-03 19:49:30.743][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-03 19:49:30.744][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-03 19:49:30.745][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-03 19:49:30.746][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-03 19:49:30.748][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-03 19:49:30.750][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-03 19:49:30.751][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-03 19:49:30.753][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-03 19:49:30.755][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:30.757][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:30.759][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-03 19:49:30.760][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-03 19:49:30.761][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-03 19:49:30.763][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-03 19:49:30.764][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-03 19:49:30.765][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-03 19:49:30.766][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-03 19:49:30.768][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-03 19:49:30.770][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-03 19:49:30.772][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-03 19:49:30.773][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-03 19:49:30.775][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-03 19:49:30.777][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-03 19:49:30.780][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-03 19:49:30.782][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-03 19:49:30.784][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-03 19:49:30.786][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-03 19:49:30.787][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-03 19:49:30.788][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.790][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.792][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.800][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.809][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.817][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.DEBUG[2025-11-03 19:49:30.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.823][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.829][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.DEBUG[2025-11-03 19:49:30.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.835][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.841][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.848][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.DEBUG[2025-11-03 19:49:30.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.854][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.860][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.867][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.873][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.879][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.DEBUG[2025-11-03 19:49:30.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.885][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.891][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[2025-11-03 19:49:30.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-03 19:49:30.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:30.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:30.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:30.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:30.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:30.897][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:30.899][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-03 19:49:30.900][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-03 19:49:30.902][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.903][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.904][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.904][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-03 19:49:30.905][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.906][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.907][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.908][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-03 19:49:30.909][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-03 19:49:30.910][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-03 19:49:30.911][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.911][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-03 19:49:30.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-03 19:49:30.914][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-03 19:49:30.915][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-03 19:49:30.915][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-03 19:49:30.915][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-03 19:49:30.915][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-03 19:49:30.916][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-03 19:49:30.917][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-03 19:49:30.920][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-03 19:49:30.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-03 19:49:30.921][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-03 19:49:30.923][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-03 19:49:30.923][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-03 19:49:30.924][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-03 19:49:30.925][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-03 19:49:30.926][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-03 19:49:30.928][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-03 19:49:30.928][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-03 19:49:30.929][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-03 19:49:30.931][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-03 19:49:30.933][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-03 19:49:30.934][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-03 19:49:30.935][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-03 19:49:30.937][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-03 19:49:30.942][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-03 19:49:30.945][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-03 19:49:30.947][biodb::testThat]
biodb.INFO [2025-11-03 19:49:30.948][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-03 19:49:30.949][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-03 19:49:30.950][biodb::testThat]
sched.DEBUG[2025-11-03 19:49:30.952][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-03 19:49:30.954][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:30.958][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-03 19:49:30.960][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-03 19:49:30.963][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 [2025-11-03 19:49:30.966][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-03 19:49:30.967][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-03 19:49:30.968][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-03 19:49:30.981][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-03 19:49:30.987][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-03 19:49:30.989][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-03 19:49:30.997][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-03 19:49:30.999][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-03 19:49:31.000][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-03 19:49:31.001][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-03 19:49:31.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-03 19:49:31.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:31.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:31.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:31.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:31.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:31.014][FUN] Functions in observer BiodbConfig: [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[2025-11-03 19:49:31.019][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.023][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.029][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:31.030][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:31.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.032][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.033][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-03 19:49:31.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-03 19:49:31.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.038][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:31.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:31.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.042][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.044][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-03 19:49:31.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-03 19:49:31.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.048][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-03 19:49:31.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-03 19:49:31.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.051][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.053][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-03 19:49:31.055][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-03 19:49:31.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.057][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.059][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:31.060][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:31.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.063][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.064][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:31.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-03 19:49:31.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.069][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:31.071][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:31.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.073][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.075][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-03 19:49:31.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-03 19:49:31.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.079][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:31.080][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:31.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.082][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:31.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-03 19:49:31.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.087][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:31.089][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:31.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.091][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-03 19:49:31.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-03 19:49:31.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.099][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:31.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:31.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.102][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-03 19:49:31.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-03 19:49:31.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.109][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:31.110][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:31.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.112][ef$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.113][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-03 19:49:31.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-03 19:49:31.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:31.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:31.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:31.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:31.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-03 19:49:31.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-03 19:49:31.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-03 19:49:31.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-03 19:49:31.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-03 19:49:31.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-03 19:49:31.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-03 19:49:31.156][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-03 19:49:31.160][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-03 19:49:31.162][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-03 19:49:31.163][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-03 19:49:31.164][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-03 19:49:31.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-03 19:49:31.166][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-03 19:49:31.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-03 19:49:31.168][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-03 19:49:31.169][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 17.268   0.980  26.180

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.3820.9983.492
ChebiEntry0.3080.0180.338