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This page was generated on 2025-10-07 12:06 -0400 (Tue, 07 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4853
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4640
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4585
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4584
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 208/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-06 13:45 -0400 (Mon, 06 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on kjohnson3

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-06 18:27:47 -0400 (Mon, 06 Oct 2025)
EndedAt: 2025-10-06 18:28:15 -0400 (Mon, 06 Oct 2025)
EllapsedTime: 28.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

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


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.15.1’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-06 18:28:06.510][biodb::testContext]
biodb.INFO [2025-10-06 18:28:06.512][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:06.512][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-06 18:28:06.512][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:06.513][biodb::testContext]
biodb.INFO [2025-10-06 18:28:06.515][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:06.516][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:06.519][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:06.519][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-06 18:28:06.520][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-06 18:28:06.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.521][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-06 18:28:06.527][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-06 18:28:06.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.528][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-06 18:28:06.528][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-06 18:28:06.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.529][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-06 18:28:06.530][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-06 18:28:06.530][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-06 18:28:06.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.531][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".
biodb.DEBUG[2025-10-06 18:28:06.531][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-06 18:28:06.531][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-06 18:28:06.531][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-06 18:28:06.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.532][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-06 18:28:06.533][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-06 18:28:06.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.534][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-06 18:28:06.534][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-06 18:28:06.534][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-06 18:28:06.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.535][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-06 18:28:06.535][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-06 18:28:06.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.536][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-06 18:28:06.541][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-06 18:28:06.541][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-06 18:28:06.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.542][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:06.542][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-06 18:28:06.543][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-06 18:28:06.543][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-06 18:28:06.543][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-06 18:28:06.543][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-06 18:28:06.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.544][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.DEBUG[2025-10-06 18:28:06.544][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-06 18:28:06.545][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-06 18:28:06.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.546][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-06 18:28:06.546][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-06 18:28:06.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.547][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-06 18:28:06.547][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-06 18:28:06.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.548][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-06 18:28:06.548][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-06 18:28:06.549][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-06 18:28:06.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.550][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:06.550][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-06 18:28:06.555][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-06 18:28:06.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.556][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-06 18:28:06.556][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-06 18:28:06.557][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-06 18:28:06.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.557][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.DEBUG[2025-10-06 18:28:06.559][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-06 18:28:06.570][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.575][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-06 18:28:06.575][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.575][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:06.576][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.576][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.576][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.577][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:06.577][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:06.577][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.578][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-06 18:28:06.578][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:06.578][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.578][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.579][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:06.579][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:06.579][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:06.579][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:06.579][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:06.579][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:06.579][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.579][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.580][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:06.580][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.580][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.580][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.581][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.581][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:06.581][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:06.581][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.582][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.582][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-06 18:28:06.583][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.583][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:06.583][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.583][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:06.584][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.584][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.584][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.584][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.585][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:06.585][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:06.585][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.585][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:06.586][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:06.587][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:06.587][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.587][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.587][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:06.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.588][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.588][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.588][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.589][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:06.589][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:06.589][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.589][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.590][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-06 18:28:06.590][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.591][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-06 18:28:06.591][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.591][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:06.591][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.592][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.592][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.592][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.592][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:06.593][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:06.593][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.593][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-06 18:28:06.593][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:06.596][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.596][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.597][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.597][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:06.597][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.597][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.598][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:06.598][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.598][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.599][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.599][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:06.599][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:06.599][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.600][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.600][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-06 18:28:06.600][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.601][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:06.601][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.601][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:06.602][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.602][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.602][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.602][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.603][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:06.603][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:06.603][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.603][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-06 18:28:06.604][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:06.604][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.604][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.604][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.605][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:06.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.605][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:06.606][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.606][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.606][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.606][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.607][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:06.607][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:06.607][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.607][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:06.609][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:06.609][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.609][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.DEBUG[2025-10-06 18:28:06.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.612][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[2025-10-06 18:28:06.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.619][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.DEBUG[2025-10-06 18:28:06.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.622][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.DEBUG[2025-10-06 18:28:06.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.628][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[2025-10-06 18:28:06.628][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-06 18:28:06.630][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-06 18:28:06.631][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-06 18:28:06.631][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-06 18:28:06.632][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:06.632][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-06 18:28:06.632][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:06.633][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:06.633][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-06 18:28:06.633][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-06 18:28:06.634][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:06.634][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-06 18:28:06.635][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:06.635][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:06.635][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-06 18:28:06.636][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-06 18:28:06.636][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-06 18:28:06.636][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-06 18:28:06.637][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:06.637][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-06 18:28:06.638][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-06 18:28:06.638][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-06 18:28:06.638][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-06 18:28:06.639][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-06 18:28:06.639][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-06 18:28:06.639][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-06 18:28:06.640][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-06 18:28:06.640][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-06 18:28:06.640][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-06 18:28:06.641][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-06 18:28:06.641][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-06 18:28:06.642][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-06 18:28:06.642][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-06 18:28:06.642][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-06 18:28:06.645][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-06 18:28:06.645][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-06 18:28:06.646][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-06 18:28:06.646][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-06 18:28:06.647][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-06 18:28:06.647][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-06 18:28:06.647][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-06 18:28:06.648][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-06 18:28:06.648][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-06 18:28:06.649][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-06 18:28:06.649][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-06 18:28:06.649][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-06 18:28:06.650][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-06 18:28:06.650][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-06 18:28:06.650][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-06 18:28:06.651][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-06 18:28:06.651][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-06 18:28:06.652][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-06 18:28:06.652][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-06 18:28:06.652][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-06 18:28:06.653][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-06 18:28:06.653][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-06 18:28:06.653][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-06 18:28:06.654][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-06 18:28:06.654][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-06 18:28:06.655][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-06 18:28:06.655][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-06 18:28:06.655][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-06 18:28:06.656][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-06 18:28:06.656][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-06 18:28:06.656][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-06 18:28:06.657][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-06 18:28:06.657][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:06.657][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:06.658][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-06 18:28:06.658][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-06 18:28:06.659][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-06 18:28:06.659][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-06 18:28:06.659][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-06 18:28:06.660][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-06 18:28:06.660][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-06 18:28:06.660][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-06 18:28:06.661][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-06 18:28:06.661][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-06 18:28:06.662][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-06 18:28:06.662][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-06 18:28:06.662][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-06 18:28:06.663][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-06 18:28:06.663][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-06 18:28:06.665][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-06 18:28:06.665][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:06.667][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:06.667][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.668][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.674][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[2025-10-06 18:28:06.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.680][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[2025-10-06 18:28:06.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.684][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[2025-10-06 18:28:06.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.685][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[2025-10-06 18:28:06.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.687][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.DEBUG[2025-10-06 18:28:06.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.688][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[2025-10-06 18:28:06.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:06.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:06.698][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:06.701][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-06 18:28:06.702][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.702][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.703][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.703][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:06.703][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.703][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.704][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.704][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-06 18:28:06.704][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-06 18:28:06.705][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:06.705][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.705][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-06 18:28:06.705][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:06.706][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:06.707][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-06 18:28:06.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.707][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.707][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:06.708][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:06.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:06.708][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:06.708][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-06 18:28:06.708][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-06 18:28:06.709][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:06.709][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:06.709][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:06.709][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-06 18:28:06.709][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-06 18:28:06.711][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:06.712][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:06.712][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-06 18:28:06.713][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:06.713][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:06.713][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:06.723][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-06 18:28:06.731][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-06 18:28:06.734][biodb::testThat]
biodb.INFO [2025-10-06 18:28:06.735][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-06 18:28:06.735][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:06.735][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:06.737][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-06 18:28:06.738][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:06.739][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:06.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:06.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:06.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:06.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:06.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:06.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:06.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:06.752][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.753][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.753][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.764][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.764][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.765][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.774][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.775][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.775][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.777][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.778][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.778][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.780][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.780][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.780][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.782][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.783][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.784][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:06.784][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.785][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.785][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:06.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.787][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.787][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.789][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:06.789][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:06.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.790][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:06.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:06.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:06.791][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.792][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.792][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:06.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.793][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:06.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:06.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.794][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.794][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:06.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:06.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:06.820][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-06 18:28:06.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.835][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-06 18:28:06.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-06 18:28:06.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.836][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-06 18:28:06.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-06 18:28:06.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.837][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-06 18:28:06.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-06 18:28:06.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.859][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-06 18:28:06.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-06 18:28:06.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.886][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.886][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:06.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:06.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:06.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:06.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:06.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:06.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.906][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:06.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:06.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.906][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.907][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:06.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:06.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.911][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.912][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.913][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.914][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.914][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.922][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.922][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:06.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.930][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.931][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:06.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.935][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.936][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.938][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.939][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.939][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.940][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.944][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.948][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.949][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.950][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.950][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.951][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.951][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:06.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.955][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.956][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.957][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.958][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.959][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.960][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:06.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.963][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:06.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:06.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.964][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:06.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:06.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:06.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.967][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:06.967][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:06.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:06.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:06.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.973][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.975][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.976][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:06.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.983][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.984][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.991][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:06.991][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:06.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.994][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:06.994][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:06.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.996][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:06.996][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:06.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.997][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:06.998][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:06.999][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:06.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:06.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.001][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.001][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.002][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.003][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:07.003][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:07.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.004][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.005][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.006][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.007][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.008][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.008][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.010][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-06 18:28:07.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:07.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.011][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.012][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.013][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.014][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:07.015][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:07.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.015][ef$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:07.018][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.018][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-06 18:28:07.018][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:07.019][biodb::testThat]
biodb.DEBUG[2025-10-06 18:28:07.024][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-06 18:28:07.026][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:07.027][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:07.029][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-06 18:28:07.030][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:07.040][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:07.040][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:07.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:07.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:07.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:07.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:07.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:07.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:07.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:07.045][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.046][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.053][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:07.054][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:07.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.054][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.054][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:07.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:07.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.056][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:07.056][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:07.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.057][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:07.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:07.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.058][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:07.058][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:07.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.059][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:07.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:07.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.060][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.060][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.061][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.062][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:07.063][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:07.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.064][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:07.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:07.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.065][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:07.065][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.066][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:07.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.067][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.067][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.069][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.069][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.071][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:07.072][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:07.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.072][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.073][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:07.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:07.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.074][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:07.074][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:07.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.074][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.075][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:07.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:07.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:07.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:07.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:07.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:07.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:07.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:07.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:07.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:07.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:07.089][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-06 18:28:07.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-06 18:28:07.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-06 18:28:07.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-06 18:28:07.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-06 18:28:07.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-06 18:28:07.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-06 18:28:07.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:07.096][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.096][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-06 18:28:07.096][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:07.097][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:07.098][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.099][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:07.099][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-06 18:28:07.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:07.112][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-06 18:28:07.114][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-06 18:28:07.123][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:07.125][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-06 18:28:07.126][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:07.132][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:07.142][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:07.144][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:07.145][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:07.145][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-06 18:28:07.150][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:07.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.151][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.151][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.151][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.152][ef$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:07.154][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.154][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-06 18:28:07.155][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:07.155][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:07.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:07.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:07.188][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:07.189][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:07.190][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:07.190][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-06 18:28:07.196][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.196][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-06 18:28:07.197][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:07.197][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:07.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:07.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:07.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.215][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.216][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-06 18:28:07.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-06 18:28:07.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.218][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-06 18:28:07.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-06 18:28:07.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:07.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:07.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:07.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:07.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:07.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:07.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.233][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.234][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-06 18:28:07.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.235][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-06 18:28:07.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-06 18:28:07.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:07.236][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-06 18:28:07.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-06 18:28:07.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:07.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:07.240][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.240][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-06 18:28:07.240][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:07.241][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.243][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.244][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-06 18:28:07.244][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:07.244][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.247][biodb::testThat]
biodb.INFO [2025-10-06 18:28:07.247][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-06 18:28:07.247][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:07.248][biodb::testThat]
biodb.DEBUG[2025-10-06 18:28:07.249][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-06 18:28:07.931][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-06 18:28:09.186][biodb::testThat]
biodb.INFO [2025-10-06 18:28:09.187][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-06 18:28:09.187][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:09.187][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:09.190][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.191][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.191][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.192][ef$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:09.192][biodb::testThat]
biodb.INFO [2025-10-06 18:28:09.193][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-06 18:28:09.193][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:09.193][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:09.197][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:09.240][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:09.241][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:09.242][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:09.242][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:09.272][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:09.273][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:09.274][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:09.274][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-06 18:28:09.279][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-06 18:28:09.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-06 18:28:09.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:09.291][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:09.292][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:09.293][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-06 18:28:09.293][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.298][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-06 18:28:09.316][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.317][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.318][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-06 18:28:09.318][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.319][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.319][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.324][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.324][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.325][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.326][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.327][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.328][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.329][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.329][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.330][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.331][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.332][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.334][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.334][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.336][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.337][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.337][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.337][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.338][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.338][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.339][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.340][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.340][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.342][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.348][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.348][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.349][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.350][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.363][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-06 18:28:09.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.368][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:09.370][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:09.371][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:09.372][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-06 18:28:09.372][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.390][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-06 18:28:09.391][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.391][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.392][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-06 18:28:09.393][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.393][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.393][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.397][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.398][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.400][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.400][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.401][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.402][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.402][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.403][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.404][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.404][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.407][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.407][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.408][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.409][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.409][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.410][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.410][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.410][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.411][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.412][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.413][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.416][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.416][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.418][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.419][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.419][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.421][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.421][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.433][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-06 18:28:09.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:09.443][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:09.443][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:09.445][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:09.445][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.459][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-06 18:28:09.459][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.459][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.461][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-06 18:28:09.461][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.462][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.462][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.467][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.468][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.468][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.470][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.470][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.471][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.471][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.471][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.472][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.473][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.473][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.473][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.474][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.474][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.475][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.475][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.475][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.476][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.476][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.477][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.477][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.478][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.478][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.478][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.479][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.481][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.481][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.482][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.482][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.483][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.483][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.484][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.498][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-06 18:28:09.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.507][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-06 18:28:09.507][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.508][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.509][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-06 18:28:09.509][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.510][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.510][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.514][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.517][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.517][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.518][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.518][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.519][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.519][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.520][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.520][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.521][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.521][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.522][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.522][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.525][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.526][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.526][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.527][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.527][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.527][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.528][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.528][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.529][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.529][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.531][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.531][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.532][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.532][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.533][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.533][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.550][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-06 18:28:09.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.559][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-06 18:28:09.559][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.560][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.564][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-06 18:28:09.564][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.565][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.568][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.573][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.573][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.574][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.575][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.576][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.576][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.577][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.577][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.577][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.578][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.578][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.579][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.579][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.579][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.580][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.580][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.580][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.581][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.581][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.581][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.582][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.582][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.583][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.583][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.583][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.584][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.586][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.586][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.587][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.587][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.588][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.588][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.602][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-06 18:28:09.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.611][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-06 18:28:09.612][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.612][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.614][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-06 18:28:09.614][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.615][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.615][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.619][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.620][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.620][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.622][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.622][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.623][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.624][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.624][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.625][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.625][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.627][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.629][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.629][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.629][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.631][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.631][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.631][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.632][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.633][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.633][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.634][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.634][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.636][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.646][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.646][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.648][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.648][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.650][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.651][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.652][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.653][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.653][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.653][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.654][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.667][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-06 18:28:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.674][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[2025-10-06 18:28:09.674][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-06 18:28:09.674][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.675][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.676][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-06 18:28:09.677][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.677][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.677][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.684][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.685][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.685][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.687][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.687][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.688][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.689][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.690][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.692][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.693][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.694][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.695][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.695][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.696][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.697][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.697][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.698][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.699][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.699][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.700][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.701][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.701][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.703][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.704][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.704][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.705][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.706][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.706][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.707][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.707][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.708][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.708][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.709][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.709][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.726][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-06 18:28:09.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.733][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-06 18:28:09.733][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.733][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.735][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-06 18:28:09.735][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.736][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.736][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.741][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.741][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.742][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.743][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.743][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.744][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.744][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.745][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.746][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.746][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.747][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.748][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.748][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.749][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.750][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.751][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.753][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.753][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.754][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.754][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.758][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.760][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.760][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.761][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.762][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.763][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.763][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.764][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.765][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.765][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.768][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.768][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.782][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-06 18:28:09.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.789][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-06 18:28:09.789][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.790][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.791][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-06 18:28:09.792][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.792][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.793][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.799][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.800][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.800][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.802][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.802][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.803][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.805][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.806][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.806][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.808][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.809][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.810][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.810][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.812][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.813][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.814][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.814][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.815][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.816][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.817][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.817][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.817][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.819][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.820][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.821][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.821][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.822][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.822][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.823][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.824][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.824][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.841][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-06 18:28:09.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.848][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-06 18:28:09.848][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.848][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.850][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-06 18:28:09.850][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.850][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.851][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.855][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.855][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.856][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.857][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.857][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.858][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.858][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.859][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.860][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.860][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.862][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.862][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.862][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.864][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.866][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.866][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.870][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.870][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.871][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.872][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.874][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.875][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.877][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.877][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.878][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.880][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.892][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-06 18:28:09.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.900][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-06 18:28:09.900][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.900][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.902][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-06 18:28:09.902][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.905][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.906][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.910][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.TRACE[2025-10-06 18:28:09.911][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.913][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.913][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.914][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.914][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.915][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.915][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.916][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.916][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.917][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.918][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.918][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.920][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.920][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.922][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.922][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.923][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.923][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.924][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.925][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.926][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.926][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.928][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.928][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.929][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.930][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.931][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.931][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.932][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.933][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.933][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.934][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.950][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-06 18:28:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:09.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:09.958][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-06 18:28:09.958][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:09.959][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:09.960][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-06 18:28:09.960][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:09.961][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:09.961][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:09.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:09.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:09.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:09.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:09.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:09.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:09.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:09.966][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.966][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.969][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.969][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.969][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:09.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:09.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.971][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.971][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.972][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:09.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:09.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.973][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.973][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:09.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:09.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.975][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.976][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:09.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.981][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:09.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.982][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.982][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.983][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:09.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:09.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.985][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.985][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.986][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:09.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.987][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.987][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.988][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:09.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:09.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.989][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.990][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:09.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:09.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.992][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.993][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:09.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:09.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:09.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:09.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:09.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.005][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-06 18:28:10.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.012][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-06 18:28:10.015][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.016][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.017][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-06 18:28:10.017][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.018][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.018][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.023][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.025][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.025][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.026][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.026][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.027][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.028][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.028][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.028][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.030][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.030][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.030][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.031][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.031][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.032][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.033][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.033][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.034][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.034][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.037][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.038][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.038][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.039][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.040][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.040][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.041][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.041][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.042][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.043][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.043][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.056][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-06 18:28:10.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.062][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-06 18:28:10.063][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.063][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.064][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-06 18:28:10.065][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.065][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.065][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.070][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.070][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.071][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.072][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.072][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.073][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.075][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.075][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.076][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.077][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.078][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.078][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.079][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.080][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.080][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.081][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.081][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.082][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.083][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.086][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.088][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.089][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.090][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.090][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.091][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.091][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.093][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.093][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.105][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-06 18:28:10.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.112][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-06 18:28:10.113][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.113][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.115][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-06 18:28:10.116][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.116][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.117][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.125][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.125][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.126][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.128][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.128][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.129][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.129][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.130][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.132][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.133][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.135][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.135][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.135][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.137][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.137][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.138][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.138][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.138][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.139][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.140][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.140][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.141][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.142][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.143][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.143][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.144][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.145][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.145][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.146][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.147][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.147][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.162][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-06 18:28:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.169][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-06 18:28:10.170][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.170][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.172][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-06 18:28:10.172][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.172][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.173][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.177][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.177][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.178][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.179][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.180][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.180][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.182][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.182][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.184][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.184][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.185][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.186][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.187][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.188][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.189][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.189][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.190][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.190][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.195][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.197][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.197][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.199][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.200][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.200][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.201][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.201][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.202][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.214][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-06 18:28:10.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.220][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.DEBUG[2025-10-06 18:28:10.221][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-06 18:28:10.221][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.221][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.223][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-06 18:28:10.223][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.223][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.224][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.231][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.231][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.232][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.233][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.234][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.234][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.236][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.236][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.237][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.238][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.238][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.239][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.240][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.240][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.241][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.242][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.242][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.243][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.243][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.243][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.244][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.245][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.245][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.246][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.247][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.248][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.248][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.249][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.250][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.250][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.251][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.252][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.252][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.267][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-06 18:28:10.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.274][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-06 18:28:10.274][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.275][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.276][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-06 18:28:10.277][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.277][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.278][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.282][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.283][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.285][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.285][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.286][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.286][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.287][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.289][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.290][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.290][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.292][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.293][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.298][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.299][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.300][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.301][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.302][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.304][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.304][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.306][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.306][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.307][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.307][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.308][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.309][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.309][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.321][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-06 18:28:10.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.328][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-06 18:28:10.328][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.331][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.333][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-06 18:28:10.333][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.333][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.334][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.337][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[2025-10-06 18:28:10.338][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.340][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.341][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.341][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.343][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.343][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.345][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.345][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.345][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.347][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.347][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.348][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.349][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.349][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.350][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.350][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.351][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.353][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.353][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.354][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.355][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.355][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.357][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.357][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.357][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.358][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.359][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.359][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.374][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-06 18:28:10.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.381][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-06 18:28:10.381][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.382][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.383][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-06 18:28:10.384][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.384][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.384][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.389][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.389][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.390][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.391][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.391][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.392][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.393][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.394][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.395][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.396][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.396][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.402][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.402][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.404][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.405][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.405][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.406][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.407][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.408][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.408][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.409][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.410][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.412][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.413][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.413][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.414][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.415][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.415][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.416][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.428][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-06 18:28:10.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.437][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-06 18:28:10.438][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.438][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.440][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-06 18:28:10.440][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.440][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.441][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.445][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.TRACE[2025-10-06 18:28:10.446][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.446][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.448][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.448][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.449][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.450][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.451][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.453][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.454][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.457][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.457][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.458][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.458][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.459][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.459][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.459][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.461][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.461][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.461][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.463][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.463][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.465][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.465][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.466][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.467][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.467][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.468][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.468][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.483][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-06 18:28:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:10.493][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:10.493][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:10.495][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:10.495][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.625][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:10.666][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:10.667][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:10.668][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-06 18:28:10.668][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:10.670][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:10.671][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:10.672][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-06 18:28:10.672][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.676][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-06 18:28:10.677][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.677][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.679][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-06 18:28:10.679][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.680][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.680][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.684][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.685][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.685][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.687][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.687][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.691][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.693][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.693][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.693][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.695][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.695][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.696][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.697][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.698][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.698][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.700][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.700][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.700][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.701][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.702][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.702][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.703][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.703][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.704][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.705][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.707][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.708][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.710][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.710][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.711][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.711][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.712][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.713][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.713][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.713][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.730][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-06 18:28:10.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.737][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.TRACE[2025-10-06 18:28:10.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:10.745][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-06 18:28:10.745][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:10.746][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:10.747][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-06 18:28:10.748][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.748][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:10.748][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:10.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.753][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.753][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.756][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.756][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.757][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.757][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:10.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:10.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.758][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.759][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.760][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:10.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:10.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.762][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.763][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:10.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:10.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.764][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.765][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:10.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.771][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.771][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:10.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.772][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.772][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.772][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.773][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:10.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:10.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.774][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.775][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.777][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.777][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.778][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:10.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:10.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.779][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.779][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.780][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.780][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:10.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:10.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.781][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.782][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.782][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.783][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:10.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:10.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:10.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:10.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:10.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.795][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-06 18:28:10.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:10.809][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:10.810][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:10.811][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:10.812][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:10.979][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:10.980][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:10.981][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-06 18:28:10.982][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:10.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:10.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:10.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:10.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:10.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:10.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:10.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:10.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:10.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:10.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:10.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:10.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.151][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:11.155][biodb::testThat]
biodb.INFO [2025-10-06 18:28:11.155][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-06 18:28:11.156][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:11.156][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:11.157][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-06 18:28:11.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-06 18:28:11.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:11.168][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.169][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.169][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-06 18:28:11.170][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:11.177][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.178][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.179][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-06 18:28:11.179][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.277][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-06 18:28:11.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.283][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.283][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.283][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.284][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.284][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.285][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.286][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.286][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.286][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.287][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.287][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.288][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.295][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-06 18:28:11.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.301][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.301][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.301][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.301][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.302][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.303][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.303][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.303][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.304][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.304][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.304][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.305][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.305][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.310][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-06 18:28:11.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.316][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.317][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.317][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.317][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.317][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.318][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.319][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.320][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.320][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.322][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.326][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-06 18:28:11.326][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-06 18:28:11.326][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-06 18:28:11.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:11.363][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.363][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.364][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-06 18:28:11.365][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:11.366][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.367][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.368][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-06 18:28:11.368][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.400][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-06 18:28:11.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.413][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.413][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.414][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.414][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.414][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.414][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.415][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.416][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.416][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.416][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.417][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.417][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.418][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.419][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.419][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.423][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-06 18:28:11.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.427][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[2025-10-06 18:28:11.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.442][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.442][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.442][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.442][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.444][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.444][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.444][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.445][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.448][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.449][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.450][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.454][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-06 18:28:11.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.460][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.460][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.461][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.461][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.462][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.463][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.463][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.464][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.464][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.465][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.465][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.471][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-06 18:28:11.471][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-06 18:28:11.472][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-06 18:28:11.475][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:11.477][biodb::testThat]
biodb.INFO [2025-10-06 18:28:11.477][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-06 18:28:11.478][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:11.478][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:11.479][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-06 18:28:11.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-06 18:28:11.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:11.490][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.491][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.492][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-06 18:28:11.492][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:11.501][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.502][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.502][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-06 18:28:11.503][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.517][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-06 18:28:11.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.523][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.523][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.524][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.524][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.524][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.524][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.525][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.525][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.526][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.527][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.527][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.527][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.528][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.528][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.528][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.532][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-06 18:28:11.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.535][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".
biodb.TRACE[2025-10-06 18:28:11.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.538][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.538][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.539][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.539][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.541][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.541][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.541][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.542][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.542][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.543][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.546][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-06 18:28:11.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.552][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.553][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.553][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.553][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.553][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.555][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.555][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.556][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.556][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.558][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.562][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-06 18:28:11.562][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-06 18:28:11.562][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-06 18:28:11.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:11.578][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.579][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.580][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-06 18:28:11.580][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:11.581][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.582][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.583][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-06 18:28:11.583][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.604][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-06 18:28:11.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.610][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.610][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.611][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.611][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.611][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.611][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.612][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.614][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.615][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.615][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.620][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-06 18:28:11.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.628][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.628][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.628][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.628][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.629][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.629][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.629][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.630][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.630][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.631][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.631][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.631][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.632][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.632][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.633][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.637][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-06 18:28:11.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.644][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.644][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.644][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.645][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.646][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.647][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.647][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.648][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.648][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.649][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.649][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.654][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-06 18:28:11.654][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-06 18:28:11.654][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-06 18:28:11.658][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:11.661][biodb::testThat]
biodb.INFO [2025-10-06 18:28:11.661][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-06 18:28:11.661][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:11.662][biodb::testThat]
biodb.TRACE[2025-10-06 18:28:11.663][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-06 18:28:11.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-06 18:28:11.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:11.674][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.675][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.676][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-06 18:28:11.676][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-06 18:28:11.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.687][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.687][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-06 18:28:11.688][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.701][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-06 18:28:11.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.707][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.708][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.708][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.709][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.711][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.711][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.712][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.712][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.716][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-06 18:28:11.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.722][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.722][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.722][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.723][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.724][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.724][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.725][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.726][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.726][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.730][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-06 18:28:11.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.736][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.736][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.736][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.738][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.739][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.739][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.740][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.740][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-06 18:28:11.744][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-06 18:28:11.744][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-06 18:28:11.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:11.760][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.761][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.762][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-06 18:28:11.762][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:11.763][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:11.763][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:11.764][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-06 18:28:11.765][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.788][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-06 18:28:11.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.794][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.795][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.795][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.795][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.796][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.798][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.798][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.799][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.799][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.803][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-06 18:28:11.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.808][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.809][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.809][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.809][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.809][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.810][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.810][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.811][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.811][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.812][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.812][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.813][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.813][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.817][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-06 18:28:11.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.822][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.823][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-06 18:28:11.823][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-06 18:28:11.823][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-06 18:28:11.823][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.824][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.825][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.825][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.825][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.826][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-06 18:28:11.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.827][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.827][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.827][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-06 18:28:11.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.831][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-06 18:28:11.831][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-06 18:28:11.831][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-06 18:28:11.838][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-06 18:28:11.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:11.840][biodb::testThat]
biodb.INFO [2025-10-06 18:28:11.840][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-06 18:28:11.840][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:11.841][biodb::testThat]
biodb.DEBUG[2025-10-06 18:28:11.841][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-06 18:28:11.841][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:11.842][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:11.843][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-06 18:28:11.843][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.844][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:11.844][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:11.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.848][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.848][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.849][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.850][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:11.851][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:11.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.851][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.852][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:11.852][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:11.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.853][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.853][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:11.853][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:11.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.854][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.854][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.854][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.855][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.855][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.856][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.856][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.857][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:11.857][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.857][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.858][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.859][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:11.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:11.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:11.860][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:11.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.861][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:11.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:11.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.862][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.877][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-06 18:28:11.877][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-06 18:28:11.880][biodb::testThat]
biodb.INFO [2025-10-06 18:28:11.881][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-06 18:28:11.881][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:11.881][biodb::testThat]
biodb.DEBUG[2025-10-06 18:28:11.884][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-06 18:28:11.885][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-06 18:28:11.885][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-06 18:28:11.886][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:11.886][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-06 18:28:11.888][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-06 18:28:11.889][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-06 18:28:11.889][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:11.890][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-06 18:28:11.890][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:11.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.895][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.895][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.897][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:11.897][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:11.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.898][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:11.898][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:11.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.899][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.899][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:11.900][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:11.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.900][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.900][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.901][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.901][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.901][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.902][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.902][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.903][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:11.903][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.904][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.904][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.904][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.905][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:11.905][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:11.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.905][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.906][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:11.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:11.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.907][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.907][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:11.907][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:11.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.908][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.920][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.920][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.922][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:11.922][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:11.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.923][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:11.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:11.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.924][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:11.925][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:11.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:11.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:11.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:11.927][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:11.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:11.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:11.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.929][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.929][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.930][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.932][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.932][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.933][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.935][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:11.935][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.935][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.936][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:11.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.937][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.940][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:11.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:11.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:11.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:11.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.942][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:11.942][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:11.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.943][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:11.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:11.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.944][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:11.944][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:11.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.945][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:11.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:11.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:11.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:11.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:11.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:11.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:11.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:11.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:11.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:11.957][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.958][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.960][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:11.960][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:11.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.961][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:11.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.962][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:11.962][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:11.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:11.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:11.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.964][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:11.964][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:11.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:11.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:11.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.967][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:11.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.969][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.970][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.970][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.971][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:11.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.972][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:11.972][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.973][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:11.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:11.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.977][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.977][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:11.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:11.979][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:11.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.980][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:11.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:11.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.981][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:11.981][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:11.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.982][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:11.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:11.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.983][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:11.984][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:11.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.984][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:11.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:11.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:11.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:11.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:11.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:11.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:11.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:12.005][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-06 18:28:12.005][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-06 18:28:12.005][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-06 18:28:12.010][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.010][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-06 18:28:12.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.011][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.019][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.020][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-06 18:28:12.020][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.020][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.023][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.023][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-06 18:28:12.024][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.024][biodb::testThat]
sched.DEBUG[2025-10-06 18:28:12.024][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.025][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.027][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-06 18:28:12.028][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-06 18:28:12.032][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:12.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:12.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.033][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:12.033][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:12.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.034][ef$get] fields variable is a list.
biodb.INFO [2025-10-06 18:28:12.034][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.034][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-06 18:28:12.035][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.035][biodb::testThat]
biodb.ERROR[2025-10-06 18:28:12.039][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-06 18:28:12.044][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-06 18:28:12.048][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-06 18:28:12.049][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-06 18:28:12.049][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-06 18:28:12.049][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.050][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.050][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-06 18:28:12.053][biodb::testContext]
biodb.INFO [2025-10-06 18:28:12.054][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:12.054][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-06 18:28:12.054][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:12.054][biodb::testContext]
biodb.INFO [2025-10-06 18:28:12.055][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:12.056][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:12.058][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.058][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-06 18:28:12.059][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.060][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-06 18:28:12.060][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.061][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-06 18:28:12.061][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.062][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-06 18:28:12.063][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-06 18:28:12.063][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.064][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-06 18:28:12.064][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-06 18:28:12.064][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.065][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-06 18:28:12.066][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.067][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-06 18:28:12.067][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-06 18:28:12.067][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-06 18:28:12.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.068][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-06 18:28:12.068][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.069][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-06 18:28:12.070][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-06 18:28:12.070][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.071][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:12.071][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-06 18:28:12.071][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-06 18:28:12.072][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-06 18:28:12.072][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-06 18:28:12.072][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-06 18:28:12.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.073][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-06 18:28:12.073][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-06 18:28:12.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.074][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-06 18:28:12.075][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-06 18:28:12.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.078][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-06 18:28:12.079][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.079][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.DEBUG[2025-10-06 18:28:12.080][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-06 18:28:12.080][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-06 18:28:12.080][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-06 18:28:12.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.081][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:12.081][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-06 18:28:12.087][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-06 18:28:12.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.088][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-06 18:28:12.089][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-06 18:28:12.089][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-06 18:28:12.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.090][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-06 18:28:12.090][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.091][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-06 18:28:12.091][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.091][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.092][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.092][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.092][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.092][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.093][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:12.093][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.093][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.093][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:12.094][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:12.095][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.095][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.095][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.096][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.096][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.097][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.097][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.097][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.097][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.098][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-06 18:28:12.098][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.099][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:12.099][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.099][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.099][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.100][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.100][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.100][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.100][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:12.101][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.101][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.101][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-06 18:28:12.101][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.102][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.102][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.102][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.102][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.102][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.102][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:12.102][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:12.103][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.103][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.103][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.103][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.104][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.104][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.104][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.104][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.105][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.105][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.106][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-06 18:28:12.106][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.106][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-06 18:28:12.107][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.107][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.107][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.107][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.108][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.108][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.108][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:12.108][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.109][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.109][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-06 18:28:12.109][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.109][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.110][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.110][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.110][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.110][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.111][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.111][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.111][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.112][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.112][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.112][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.112][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.113][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.113][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-06 18:28:12.114][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.114][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:12.114][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.114][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.115][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.115][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.115][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.115][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.116][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:12.116][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.116][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.117][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-06 18:28:12.117][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.117][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.117][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.118][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.118][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.118][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.119][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.119][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.120][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.120][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.120][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.120][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.121][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.121][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.121][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.130][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.DEBUG[2025-10-06 18:28:12.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.134][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[2025-10-06 18:28:12.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.140][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[2025-10-06 18:28:12.140][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-06 18:28:12.140][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-06 18:28:12.141][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-06 18:28:12.141][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-06 18:28:12.141][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:12.142][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-06 18:28:12.142][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:12.142][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:12.143][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-06 18:28:12.143][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-06 18:28:12.144][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:12.144][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-06 18:28:12.144][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:12.145][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:12.145][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-06 18:28:12.145][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-06 18:28:12.146][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-06 18:28:12.146][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-06 18:28:12.146][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:12.147][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-06 18:28:12.147][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-06 18:28:12.148][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-06 18:28:12.148][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-06 18:28:12.148][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-06 18:28:12.149][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-06 18:28:12.149][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-06 18:28:12.149][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-06 18:28:12.150][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-06 18:28:12.150][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-06 18:28:12.150][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-06 18:28:12.151][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-06 18:28:12.151][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-06 18:28:12.152][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-06 18:28:12.152][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-06 18:28:12.152][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-06 18:28:12.153][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-06 18:28:12.153][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-06 18:28:12.153][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-06 18:28:12.154][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-06 18:28:12.154][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-06 18:28:12.154][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-06 18:28:12.155][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-06 18:28:12.155][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-06 18:28:12.156][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-06 18:28:12.156][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-06 18:28:12.156][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-06 18:28:12.157][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-06 18:28:12.157][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-06 18:28:12.157][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-06 18:28:12.158][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-06 18:28:12.158][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-06 18:28:12.158][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-06 18:28:12.159][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-06 18:28:12.159][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-06 18:28:12.160][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-06 18:28:12.160][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-06 18:28:12.160][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-06 18:28:12.161][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-06 18:28:12.161][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-06 18:28:12.161][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-06 18:28:12.162][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-06 18:28:12.162][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-06 18:28:12.162][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-06 18:28:12.163][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-06 18:28:12.163][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-06 18:28:12.163][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-06 18:28:12.164][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:12.167][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:12.167][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-06 18:28:12.167][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-06 18:28:12.168][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-06 18:28:12.168][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-06 18:28:12.168][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-06 18:28:12.169][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-06 18:28:12.169][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-06 18:28:12.170][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-06 18:28:12.170][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-06 18:28:12.170][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-06 18:28:12.171][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-06 18:28:12.171][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-06 18:28:12.171][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-06 18:28:12.172][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-06 18:28:12.172][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-06 18:28:12.173][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-06 18:28:12.173][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:12.173][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.174][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.174][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.178][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[2025-10-06 18:28:12.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.193][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.DEBUG[2025-10-06 18:28:12.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.197][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[2025-10-06 18:28:12.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.202][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:12.203][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-06 18:28:12.203][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.203][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.204][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.204][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.204][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.205][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.205][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.205][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-06 18:28:12.205][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-06 18:28:12.205][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-06 18:28:12.206][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-06 18:28:12.207][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.207][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.207][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.207][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.207][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-06 18:28:12.207][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.208][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.208][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.208][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.208][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.209][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.209][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-06 18:28:12.209][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-06 18:28:12.209][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.209][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.210][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.210][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-06 18:28:12.210][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-06 18:28:12.210][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:12.211][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:12.211][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-06 18:28:12.211][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:12.212][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:12.212][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:12.213][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-06 18:28:12.215][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-06 18:28:12.215][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.215][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-06 18:28:12.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.216][biodb::testThat]
sched.DEBUG[2025-10-06 18:28:12.217][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-06 18:28:12.218][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.219][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-06 18:28:12.220][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:12.221][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.222][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.222][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-06 18:28:12.223][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:12.227][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.227][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.228][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-06 18:28:12.228][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:12.242][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.243][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.243][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-06 18:28:12.244][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:12.247][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.248][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.249][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-06 18:28:12.249][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:12.256][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.257][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.258][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-06 18:28:12.258][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:12.266][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.267][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.268][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-06 18:28:12.268][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:12.272][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.273][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.274][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-06 18:28:12.274][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-06 18:28:12.280][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.280][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-06 18:28:12.280][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.280][biodb::testThat]
sched.DEBUG[2025-10-06 18:28:12.281][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.282][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.283][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-06 18:28:12.284][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-06 18:28:12.289][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.289][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.290][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-06 18:28:12.291][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-06 18:28:12.295][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-06 18:28:12.296][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-06 18:28:12.296][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-06 18:28:12.296][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.297][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.297][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.298][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.INFO [2025-10-06 18:28:12.299][biodb::testContext]
biodb.INFO [2025-10-06 18:28:12.300][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:12.300][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-06 18:28:12.300][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:12.301][biodb::testContext]
biodb.INFO [2025-10-06 18:28:12.301][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:12.302][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:12.303][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.304][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-06 18:28:12.304][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.305][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-06 18:28:12.305][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.306][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-06 18:28:12.307][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.307][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-06 18:28:12.308][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-06 18:28:12.308][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.309][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-06 18:28:12.309][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-06 18:28:12.310][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.311][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-06 18:28:12.311][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.311][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[2025-10-06 18:28:12.312][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-06 18:28:12.312][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-06 18:28:12.312][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-06 18:28:12.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.313][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-06 18:28:12.313][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.314][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-06 18:28:12.315][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-06 18:28:12.315][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.316][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:12.316][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-06 18:28:12.316][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-06 18:28:12.317][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-06 18:28:12.317][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-06 18:28:12.317][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-06 18:28:12.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.318][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-06 18:28:12.318][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-06 18:28:12.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.319][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-06 18:28:12.320][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-06 18:28:12.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.321][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-06 18:28:12.321][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.322][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-06 18:28:12.322][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-06 18:28:12.323][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-06 18:28:12.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.324][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:12.324][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-06 18:28:12.329][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-06 18:28:12.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.330][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-06 18:28:12.331][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-06 18:28:12.331][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-06 18:28:12.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.332][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-06 18:28:12.333][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.333][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-06 18:28:12.333][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.333][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.334][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.334][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.334][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.334][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.335][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:12.335][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.335][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.335][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:12.336][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:12.337][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.337][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.337][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.338][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.338][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.338][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.338][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.338][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.339][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.339][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.339][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.339][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.340][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-06 18:28:12.340][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.341][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:12.341][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.341][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.341][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.342][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.342][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.342][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.342][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:12.343][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.343][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.343][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-06 18:28:12.343][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:12.344][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.345][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.345][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.345][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.345][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.347][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.347][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.347][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.348][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.348][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.348][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.349][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-06 18:28:12.349][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.349][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-06 18:28:12.350][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.350][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.350][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.350][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.351][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.351][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.351][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:12.351][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.352][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.352][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-06 18:28:12.352][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.353][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.353][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.353][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.353][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.354][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.355][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.355][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.355][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.356][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.356][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.356][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.356][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-06 18:28:12.357][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.357][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:12.357][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.358][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.358][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.358][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.358][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.359][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.359][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:12.359][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.359][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.360][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-06 18:28:12.360][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.360][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.360][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.361][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.361][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.361][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.362][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.362][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.362][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.366][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.366][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.367][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.367][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.367][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.367][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.368][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.368][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[2025-10-06 18:28:12.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.373][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[2025-10-06 18:28:12.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.375][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[2025-10-06 18:28:12.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.376][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[2025-10-06 18:28:12.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.377][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[2025-10-06 18:28:12.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.381][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[2025-10-06 18:28:12.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.387][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-06 18:28:12.388][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-06 18:28:12.388][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-06 18:28:12.389][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-06 18:28:12.389][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:12.389][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-06 18:28:12.390][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:12.390][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:12.390][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-06 18:28:12.391][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-06 18:28:12.391][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:12.391][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-06 18:28:12.392][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:12.392][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:12.393][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-06 18:28:12.393][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-06 18:28:12.393][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-06 18:28:12.394][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-06 18:28:12.394][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:12.395][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-06 18:28:12.395][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-06 18:28:12.395][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-06 18:28:12.396][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-06 18:28:12.396][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-06 18:28:12.396][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-06 18:28:12.397][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-06 18:28:12.397][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-06 18:28:12.398][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-06 18:28:12.398][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-06 18:28:12.399][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-06 18:28:12.399][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-06 18:28:12.400][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-06 18:28:12.400][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-06 18:28:12.400][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-06 18:28:12.401][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-06 18:28:12.401][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-06 18:28:12.401][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-06 18:28:12.402][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-06 18:28:12.402][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-06 18:28:12.403][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-06 18:28:12.403][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-06 18:28:12.403][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-06 18:28:12.404][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-06 18:28:12.404][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-06 18:28:12.405][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-06 18:28:12.405][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-06 18:28:12.406][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-06 18:28:12.406][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-06 18:28:12.406][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-06 18:28:12.407][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-06 18:28:12.407][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-06 18:28:12.408][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-06 18:28:12.408][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-06 18:28:12.409][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-06 18:28:12.409][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-06 18:28:12.409][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-06 18:28:12.410][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-06 18:28:12.410][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-06 18:28:12.411][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-06 18:28:12.411][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-06 18:28:12.412][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-06 18:28:12.412][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-06 18:28:12.412][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-06 18:28:12.413][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-06 18:28:12.413][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-06 18:28:12.413][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-06 18:28:12.414][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:12.414][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:12.415][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-06 18:28:12.415][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-06 18:28:12.415][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-06 18:28:12.416][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-06 18:28:12.416][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-06 18:28:12.416][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-06 18:28:12.417][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-06 18:28:12.417][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-06 18:28:12.418][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-06 18:28:12.418][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-06 18:28:12.419][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-06 18:28:12.419][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-06 18:28:12.419][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-06 18:28:12.420][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-06 18:28:12.420][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-06 18:28:12.420][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-06 18:28:12.421][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:12.421][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.422][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.422][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.424][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[2025-10-06 18:28:12.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.427][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.DEBUG[2025-10-06 18:28:12.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.439][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.DEBUG[2025-10-06 18:28:12.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.442][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".
biodb.DEBUG[2025-10-06 18:28:12.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.452][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:12.453][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-06 18:28:12.453][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.454][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.454][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.454][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.454][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.455][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.455][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.455][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-06 18:28:12.456][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-06 18:28:12.456][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.456][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.456][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.457][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.458][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-06 18:28:12.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.458][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.459][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.459][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-06 18:28:12.459][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-06 18:28:12.460][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.460][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.460][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.460][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-06 18:28:12.460][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-06 18:28:12.461][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:12.461][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:12.462][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-06 18:28:12.462][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:12.462][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:12.463][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:12.464][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-06 18:28:12.466][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-06 18:28:12.466][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.466][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-06 18:28:12.467][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.467][biodb::testThat]
sched.DEBUG[2025-10-06 18:28:12.468][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-06 18:28:12.468][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.470][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-06 18:28:12.470][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:12.471][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.472][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.473][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-06 18:28:12.473][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-06 18:28:12.476][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-06 18:28:12.476][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-06 18:28:12.477][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-06 18:28:12.477][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.477][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.478][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-06 18:28:12.479][biodb::testContext]
biodb.INFO [2025-10-06 18:28:12.480][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:12.480][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-06 18:28:12.480][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-06 18:28:12.480][biodb::testContext]
biodb.INFO [2025-10-06 18:28:12.481][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:12.482][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:12.483][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.483][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-06 18:28:12.484][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.485][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-06 18:28:12.485][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.486][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-06 18:28:12.486][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.487][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-06 18:28:12.487][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-06 18:28:12.488][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.488][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-06 18:28:12.489][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-06 18:28:12.489][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.490][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-06 18:28:12.490][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.491][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-06 18:28:12.491][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-06 18:28:12.492][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-06 18:28:12.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.493][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-06 18:28:12.493][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.494][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-06 18:28:12.494][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-06 18:28:12.494][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-06 18:28:12.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.495][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:12.496][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-06 18:28:12.496][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-06 18:28:12.496][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-06 18:28:12.496][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-06 18:28:12.497][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-06 18:28:12.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.498][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-06 18:28:12.498][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-06 18:28:12.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.499][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-06 18:28:12.499][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-06 18:28:12.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.500][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-06 18:28:12.500][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-06 18:28:12.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.501][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-06 18:28:12.501][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-06 18:28:12.502][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-06 18:28:12.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.503][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-06 18:28:12.503][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-06 18:28:12.508][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-06 18:28:12.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.509][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-06 18:28:12.510][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-06 18:28:12.510][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-06 18:28:12.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.511][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-06 18:28:12.511][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.512][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-06 18:28:12.512][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.512][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.512][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.513][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.513][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.513][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.513][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:12.514][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.514][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.514][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-06 18:28:12.514][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.515][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.515][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.515][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.515][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.515][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.515][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:12.515][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:12.516][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.516][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.517][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.517][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.517][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.518][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.518][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.518][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.519][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-06 18:28:12.519][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.519][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:12.520][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.520][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.520][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.520][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.521][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.521][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.521][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:12.521][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.522][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.522][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-06 18:28:12.522][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.522][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.523][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.524][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.524][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.524][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.525][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.525][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.525][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.526][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.526][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.526][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-06 18:28:12.527][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.527][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-06 18:28:12.527][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.527][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.528][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.528][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.528][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.529][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-06 18:28:12.529][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.529][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.529][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-06 18:28:12.530][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.530][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.530][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.530][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.531][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.531][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.531][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.531][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.532][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.532][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.533][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.533][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.533][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.533][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.534][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-06 18:28:12.534][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.534][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-06 18:28:12.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.535][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.535][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.535][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.536][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.536][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.536][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-06 18:28:12.536][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.537][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.537][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-06 18:28:12.537][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.538][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.538][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.538][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.538][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-06 18:28:12.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.539][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.540][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.540][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.540][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.540][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.541][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.541][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-06 18:28:12.541][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.542][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.544][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.DEBUG[2025-10-06 18:28:12.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.548][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[2025-10-06 18:28:12.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.552][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.DEBUG[2025-10-06 18:28:12.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.557][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.DEBUG[2025-10-06 18:28:12.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.563][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-06 18:28:12.563][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-06 18:28:12.563][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-06 18:28:12.564][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-06 18:28:12.564][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:12.565][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-06 18:28:12.565][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:12.565][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:12.566][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-06 18:28:12.566][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-06 18:28:12.566][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:12.567][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-06 18:28:12.567][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-06 18:28:12.567][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-06 18:28:12.568][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-06 18:28:12.568][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-06 18:28:12.569][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-06 18:28:12.569][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-06 18:28:12.569][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:12.570][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-06 18:28:12.570][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-06 18:28:12.570][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-06 18:28:12.571][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-06 18:28:12.571][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-06 18:28:12.572][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-06 18:28:12.572][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-06 18:28:12.572][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-06 18:28:12.573][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-06 18:28:12.573][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-06 18:28:12.573][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-06 18:28:12.574][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-06 18:28:12.574][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-06 18:28:12.574][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-06 18:28:12.575][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-06 18:28:12.575][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-06 18:28:12.575][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-06 18:28:12.576][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-06 18:28:12.576][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-06 18:28:12.577][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-06 18:28:12.577][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-06 18:28:12.577][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-06 18:28:12.578][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-06 18:28:12.578][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-06 18:28:12.578][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-06 18:28:12.579][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-06 18:28:12.579][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-06 18:28:12.580][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-06 18:28:12.580][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-06 18:28:12.580][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-06 18:28:12.581][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-06 18:28:12.581][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-06 18:28:12.581][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-06 18:28:12.582][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-06 18:28:12.582][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-06 18:28:12.582][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-06 18:28:12.583][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-06 18:28:12.583][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-06 18:28:12.584][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-06 18:28:12.584][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-06 18:28:12.584][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-06 18:28:12.585][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-06 18:28:12.585][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-06 18:28:12.585][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-06 18:28:12.586][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-06 18:28:12.586][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-06 18:28:12.586][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-06 18:28:12.587][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:12.587][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:12.587][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-06 18:28:12.588][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-06 18:28:12.588][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-06 18:28:12.589][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-06 18:28:12.589][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-06 18:28:12.589][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-06 18:28:12.590][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-06 18:28:12.590][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-06 18:28:12.590][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-06 18:28:12.591][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-06 18:28:12.591][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-06 18:28:12.591][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-06 18:28:12.592][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-06 18:28:12.592][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-06 18:28:12.592][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-06 18:28:12.593][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-06 18:28:12.593][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-06 18:28:12.594][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-06 18:28:12.594][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.594][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.596][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.DEBUG[2025-10-06 18:28:12.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.599][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[2025-10-06 18:28:12.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.603][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[2025-10-06 18:28:12.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.609][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.DEBUG[2025-10-06 18:28:12.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.612][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[2025-10-06 18:28:12.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.617][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[2025-10-06 18:28:12.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-06 18:28:12.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-06 18:28:12.620][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-06 18:28:12.621][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-06 18:28:12.622][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.622][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.622][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.622][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-06 18:28:12.623][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.623][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.623][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.623][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-06 18:28:12.624][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-06 18:28:12.624][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-06 18:28:12.624][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.624][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-06 18:28:12.627][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-06 18:28:12.628][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-06 18:28:12.628][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-06 18:28:12.628][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-06 18:28:12.628][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-06 18:28:12.628][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-06 18:28:12.629][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.629][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-06 18:28:12.629][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-06 18:28:12.630][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-06 18:28:12.630][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-06 18:28:12.630][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-06 18:28:12.630][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-06 18:28:12.630][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-06 18:28:12.631][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-06 18:28:12.631][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-06 18:28:12.631][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-06 18:28:12.631][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-06 18:28:12.631][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-06 18:28:12.632][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-06 18:28:12.632][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-06 18:28:12.633][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-06 18:28:12.633][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-06 18:28:12.633][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-06 18:28:12.635][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-06 18:28:12.636][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-06 18:28:12.637][biodb::testThat]
biodb.INFO [2025-10-06 18:28:12.637][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-06 18:28:12.637][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-06 18:28:12.637][biodb::testThat]
sched.DEBUG[2025-10-06 18:28:12.638][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-06 18:28:12.639][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.641][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-06 18:28:12.641][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-06 18:28:12.642][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-06 18:28:12.643][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-06 18:28:12.644][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-06 18:28:12.644][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.649][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-06 18:28:12.651][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-06 18:28:12.652][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-06 18:28:12.655][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-06 18:28:12.655][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-06 18:28:12.656][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-06 18:28:12.656][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-06 18:28:12.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-06 18:28:12.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-06 18:28:12.661][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.662][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.662][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.664][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:12.664][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:12.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.665][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-06 18:28:12.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-06 18:28:12.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.666][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:12.666][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:12.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.667][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-06 18:28:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-06 18:28:12.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.668][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-06 18:28:12.669][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-06 18:28:12.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.669][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.670][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-06 18:28:12.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-06 18:28:12.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:12.671][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:12.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.672][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.672][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:12.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-06 18:28:12.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.673][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:12.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:12.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.674][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.674][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-06 18:28:12.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-06 18:28:12.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.675][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:12.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:12.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.676][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:12.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-06 18:28:12.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.678][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:12.678][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:12.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.678][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-06 18:28:12.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-06 18:28:12.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.680][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:12.680][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:12.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.681][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.681][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-06 18:28:12.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-06 18:28:12.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.682][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:12.682][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:12.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.683][ef$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.683][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-06 18:28:12.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-06 18:28:12.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:12.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:12.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:12.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:12.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-06 18:28:12.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-06 18:28:12.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-06 18:28:12.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-06 18:28:12.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-06 18:28:12.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-06 18:28:12.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-06 18:28:12.695][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-06 18:28:12.696][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-06 18:28:12.696][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-06 18:28:12.697][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-06 18:28:12.697][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-06 18:28:12.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-06 18:28:12.697][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-06 18:28:12.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-06 18:28:12.698][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-06 18:28:12.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.666   0.265   6.894

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7100.2420.961
ChebiEntry0.1070.0060.115