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This page was generated on 2025-08-09 12:09 -0400 (Sat, 09 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.2 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4818
palomino8Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4553
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4595
kjohnson3macOS 13.7.1 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4537
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 205/2317HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-08 13:45 -0400 (Fri, 08 Aug 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 24.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    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 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published


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: 2025-08-08 18:21:05 -0400 (Fri, 08 Aug 2025)
EndedAt: 2025-08-08 18:21:31 -0400 (Fri, 08 Aug 2025)
EllapsedTime: 26.4 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 (2025-06-14 r88325)
* 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 13.7.1
* 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 (2025-06-14 r88325) -- "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 [2025-08-08 18:21:22.919][biodb::testContext]
biodb.INFO [2025-08-08 18:21:22.921][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:22.921][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-08 18:21:22.921][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:22.921][biodb::testContext]
biodb.INFO [2025-08-08 18:21:22.924][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:22.925][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:22.928][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:22.928][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 18:21:22.928][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 18:21:22.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.930][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 18:21:22.936][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 18:21:22.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.937][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 18:21:22.937][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 18:21:22.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.938][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 18:21:22.938][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 18:21:22.939][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 18:21:22.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.940][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 18:21:22.940][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 18:21:22.940][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 18:21:22.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.941][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 18:21:22.942][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 18:21:22.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.942][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 18:21:22.943][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 18:21:22.943][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 18:21:22.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.944][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 18:21:22.944][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 18:21:22.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.945][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.DEBUG[2025-08-08 18:21:22.945][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 18:21:22.946][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 18:21:22.946][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 18:21:22.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.947][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:22.947][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 18:21:22.947][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 18:21:22.948][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 18:21:22.948][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 18:21:22.948][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 18:21:22.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.949][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 18:21:22.949][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 18:21:22.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.950][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 18:21:22.951][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 18:21:22.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.952][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 18:21:22.952][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 18:21:22.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.953][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 18:21:22.953][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 18:21:22.953][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 18:21:22.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.954][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:22.955][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 18:21:22.961][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 18:21:22.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.962][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 18:21:22.962][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 18:21:22.962][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 18:21:22.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:22.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:22.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:22.965][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 18:21:22.979][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:22.985][self$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[2025-08-08 18:21:22.985][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.985][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:22.986][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.986][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:22.986][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:22.986][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:22.987][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:22.987][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:22.987][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.987][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 18:21:22.988][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:22.988][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:22.988][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.989][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:22.989][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:22.989][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:22.989][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:22.989][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:22.989][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:22.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:22.989][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:22.990][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:22.990][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:22.990][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:22.990][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:22.991][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:22.991][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:22.991][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:22.991][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:22.992][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:22.992][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 18:21:22.992][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:22.993][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:22.993][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.993][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:22.994][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.994][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:22.994][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:22.994][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:22.995][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:22.995][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:22.995][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.995][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:22.996][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:22.997][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:22.997][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:22.997][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:22.997][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:22.998][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:22.998][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:22.998][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:22.998][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:22.999][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:22.999][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:22.999][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:22.999][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.000][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 18:21:23.000][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.000][self$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[2025-08-08 18:21:23.001][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.001][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:23.001][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.002][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.002][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.002][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.002][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:23.003][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:23.003][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.003][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 18:21:23.003][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:23.004][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.004][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.004][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:23.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:23.005][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:23.005][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:23.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:23.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:23.006][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.006][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.006][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:23.007][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:23.007][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.007][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.007][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 18:21:23.008][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.008][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:23.008][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.009][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:23.009][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.009][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.009][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.010][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.010][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:23.010][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:23.010][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.011][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 18:21:23.011][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:23.011][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.012][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.012][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.012][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:23.012][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:23.012][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:23.013][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:23.013][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:23.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:23.013][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.014][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.014][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:23.014][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:23.014][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.015][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:23.016][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:23.016][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.021][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.DEBUG[2025-08-08 18:21:23.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.038][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 18:21:23.039][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 18:21:23.040][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 18:21:23.040][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 18:21:23.041][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:23.041][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 18:21:23.041][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:23.042][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:23.042][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 18:21:23.042][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 18:21:23.043][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:23.043][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 18:21:23.044][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:23.044][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:23.044][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 18:21:23.045][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 18:21:23.045][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 18:21:23.045][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 18:21:23.046][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:23.046][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 18:21:23.046][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 18:21:23.047][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 18:21:23.047][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 18:21:23.048][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 18:21:23.048][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 18:21:23.048][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 18:21:23.049][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 18:21:23.049][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 18:21:23.049][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 18:21:23.050][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 18:21:23.050][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 18:21:23.051][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 18:21:23.051][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 18:21:23.051][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 18:21:23.052][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 18:21:23.052][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 18:21:23.052][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 18:21:23.053][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 18:21:23.053][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 18:21:23.054][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 18:21:23.054][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 18:21:23.054][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 18:21:23.055][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 18:21:23.055][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 18:21:23.055][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 18:21:23.056][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 18:21:23.056][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 18:21:23.057][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 18:21:23.057][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 18:21:23.057][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 18:21:23.058][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 18:21:23.058][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 18:21:23.058][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 18:21:23.059][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 18:21:23.059][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 18:21:23.059][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 18:21:23.060][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 18:21:23.060][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 18:21:23.061][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 18:21:23.061][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 18:21:23.061][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 18:21:23.062][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 18:21:23.062][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 18:21:23.062][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 18:21:23.063][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 18:21:23.063][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 18:21:23.064][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:23.064][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:23.064][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 18:21:23.065][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 18:21:23.065][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 18:21:23.065][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 18:21:23.066][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 18:21:23.066][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 18:21:23.067][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 18:21:23.067][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 18:21:23.067][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 18:21:23.068][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 18:21:23.068][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 18:21:23.068][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 18:21:23.069][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 18:21:23.069][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 18:21:23.069][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 18:21:23.071][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 18:21:23.072][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:23.073][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:23.074][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.074][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.081][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[2025-08-08 18:21:23.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.088][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[2025-08-08 18:21:23.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.094][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.DEBUG[2025-08-08 18:21:23.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.101][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.DEBUG[2025-08-08 18:21:23.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:23.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:23.105][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:23.109][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-08 18:21:23.109][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.110][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.110][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.110][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:23.110][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.111][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.111][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.111][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-08 18:21:23.111][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 18:21:23.112][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:23.112][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.112][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-08 18:21:23.112][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:23.113][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:23.114][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 18:21:23.114][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:23.114][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:23.114][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:23.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:23.115][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:23.115][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:23.115][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-08 18:21:23.115][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-08 18:21:23.116][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:23.116][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:23.116][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:23.116][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-08 18:21:23.116][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-08 18:21:23.118][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:23.119][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:23.119][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-08 18:21:23.120][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:23.120][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:23.120][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:23.130][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-08 18:21:23.139][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-08 18:21:23.143][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.143][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-08 18:21:23.144][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.144][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:23.146][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-08 18:21:23.146][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:23.148][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:23.151][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:23.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:23.161][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.167][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.168][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.177][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.178][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.178][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.180][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.183][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.183][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.185][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.186][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.187][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:23.187][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.188][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:23.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.189][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.191][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.192][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.198][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:23.198][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.199][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:23.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.200][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.200][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.201][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:23.224][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-08 18:21:23.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.241][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.242][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.243][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 18:21:23.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 18:21:23.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.244][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 18:21:23.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 18:21:23.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.272][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.272][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.280][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.280][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.287][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.290][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.291][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.291][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.295][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.298][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.298][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.306][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.306][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.307][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.314][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.314][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.318][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.319][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.322][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.322][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.322][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.323][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.326][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.345][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.346][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.347][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.347][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.351][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.353][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.354][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.355][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.355][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.356][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.361][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.362][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.363][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.370][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.370][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.378][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.378][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.383][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.383][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.385][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.385][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.390][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.390][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.392][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.392][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.395][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.397][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.397][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.399][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.399][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.401][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.402][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.404][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.404][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.406][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.406][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.408][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.409][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.409][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:23.412][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.412][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-08 18:21:23.412][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.413][biodb::testThat]
biodb.DEBUG[2025-08-08 18:21:23.417][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-08-08 18:21:23.421][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:23.423][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:23.425][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-08-08 18:21:23.425][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:23.433][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:23.433][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:23.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:23.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:23.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:23.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:23.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:23.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:23.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:23.438][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.449][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.449][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.450][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:23.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:23.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.451][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.452][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.453][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:23.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:23.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.454][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.456][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.456][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.457][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.458][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.458][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.459][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:23.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.460][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:23.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.461][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:23.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.462][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.463][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.465][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.465][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.467][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:23.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:23.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:23.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.469][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.469][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.470][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:23.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:23.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:23.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:23.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:23.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:23.484][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-08-08 18:21:23.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-08 18:21:23.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-08 18:21:23.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-08 18:21:23.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-08 18:21:23.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-08 18:21:23.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-08 18:21:23.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:23.491][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.491][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-08 18:21:23.491][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.491][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:23.492][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.493][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.493][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:23.494][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-08 18:21:23.502][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.503][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:23.506][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-08-08 18:21:23.508][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-08 18:21:23.515][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:23.517][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-08 18:21:23.517][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:23.524][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 [2025-08-08 18:21:23.536][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:23.538][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:23.538][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:23.539][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-08 18:21:23.544][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:23.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.545][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.546][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:23.548][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.548][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-08 18:21:23.549][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.549][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:23.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:23.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:23.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:23.581][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 [2025-08-08 18:21:23.582][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:23.583][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:23.583][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-08 18:21:23.589][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.589][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-08 18:21:23.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.589][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:23.596][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.599][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.602][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.603][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.604][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 18:21:23.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 18:21:23.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 18:21:23.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 18:21:23.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:23.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:23.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:23.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:23.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.621][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.622][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 18:21:23.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.623][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 18:21:23.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 18:21:23.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:23.624][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 18:21:23.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 18:21:23.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:23.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:23.627][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.627][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-08 18:21:23.627][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.628][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.630][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.631][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-08 18:21:23.631][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.631][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.633][biodb::testThat]
biodb.INFO [2025-08-08 18:21:23.634][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-08 18:21:23.634][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:23.634][biodb::testThat]
biodb.DEBUG[2025-08-08 18:21:23.635][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-08-08 18:21:24.400][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-08-08 18:21:25.429][biodb::testThat]
biodb.INFO [2025-08-08 18:21:25.429][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-08 18:21:25.430][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:25.430][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:25.432][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.432][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.433][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.434][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.434][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:25.435][biodb::testThat]
biodb.INFO [2025-08-08 18:21:25.435][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-08 18:21:25.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:25.436][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:25.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:25.480][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 [2025-08-08 18:21:25.482][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:25.483][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:25.483][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:25.514][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 [2025-08-08 18:21:25.515][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:25.516][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:25.516][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-08 18:21:25.521][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 18:21:25.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 18:21:25.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:25.532][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 [2025-08-08 18:21:25.533][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:25.534][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-08 18:21:25.535][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.540][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-08 18:21:25.560][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.561][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.562][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-08-08 18:21:25.563][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.563][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.564][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.568][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.568][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.570][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.570][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.571][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.571][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.572][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.573][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.574][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.575][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.575][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.577][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.577][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.579][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.579][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.580][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.580][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.580][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.581][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.586][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.586][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.588][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.588][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.589][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.590][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.593][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.594][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.595][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.595][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.596][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.608][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-08 18:21:25.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:25.615][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:25.616][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:25.616][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-08 18:21:25.617][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.635][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-08 18:21:25.635][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.635][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.637][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-08-08 18:21:25.637][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.637][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.638][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.642][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.644][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.645][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.646][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.647][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.649][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.651][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.651][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.654][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.655][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.656][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.659][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.659][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.661][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.661][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.662][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.663][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.663][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.664][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.679][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-08 18:21:25.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:25.688][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 [2025-08-08 18:21:25.689][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:25.690][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:25.690][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.694][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.TRACE[2025-08-08 18:21:25.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.701][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-08 18:21:25.701][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.702][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.703][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-08-08 18:21:25.703][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.703][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.704][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.708][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.711][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.713][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.714][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.714][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.715][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.715][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.716][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.717][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.717][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.718][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.718][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.719][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.720][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.720][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.721][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.723][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.723][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.725][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.725][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.736][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-08 18:21:25.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.747][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-08 18:21:25.748][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.748][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.750][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-08-08 18:21:25.750][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.750][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.751][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.755][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.755][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.757][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.757][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.758][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.758][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.759][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.760][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.760][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.761][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.762][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.762][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.763][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.763][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.764][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.764][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.765][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.766][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.767][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.767][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.768][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.769][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.770][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.783][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-08 18:21:25.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.792][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-08 18:21:25.793][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.793][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.794][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-08-08 18:21:25.795][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.795][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.795][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.799][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[2025-08-08 18:21:25.799][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.800][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.802][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.802][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.802][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.803][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.803][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.804][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.804][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.805][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.805][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.806][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.806][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.807][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.807][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.808][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.808][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.809][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.809][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.811][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.812][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.813][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.814][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.828][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-08 18:21:25.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.837][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-08 18:21:25.837][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.838][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.839][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-08-08 18:21:25.840][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.840][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.840][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.844][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.845][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.847][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.847][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.848][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.849][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.849][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.850][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.851][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.851][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.853][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.854][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.855][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.856][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.859][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.860][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.860][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.861][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.862][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.863][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.865][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.865][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.867][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.867][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.868][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.869][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.869][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.870][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.882][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-08 18:21:25.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.888][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-08 18:21:25.888][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.889][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.891][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-08-08 18:21:25.891][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.891][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.892][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.898][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.899][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.901][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.901][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.902][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.903][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.903][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.905][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.907][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.907][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.909][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.911][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.912][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.913][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.914][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.914][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.916][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.916][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.918][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.918][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.919][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.920][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.920][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.921][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.935][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-08 18:21:25.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:25.942][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-08 18:21:25.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.943][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.944][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-08-08 18:21:25.945][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.945][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.946][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:25.950][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.951][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.953][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.954][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:25.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:25.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.955][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.955][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.956][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.956][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:25.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:25.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.957][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.957][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:25.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:25.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.959][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.959][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:25.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.961][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.962][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:25.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.962][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.963][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.963][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:25.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.965][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:25.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.966][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.967][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:25.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:25.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.971][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.971][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.972][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:25.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:25.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.973][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:25.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:25.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:25.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:25.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.986][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-08 18:21:25.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:25.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:25.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:25.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:25.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.992][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.DEBUG[2025-08-08 18:21:25.992][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-08 18:21:25.993][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:25.993][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:25.995][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-08-08 18:21:25.995][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:25.995][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:25.996][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:25.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:25.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:25.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:25.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:25.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:25.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:25.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.000][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.000][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.001][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.002][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.002][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.003][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.004][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.014][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.015][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.015][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.017][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.019][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.019][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.020][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.020][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.022][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.022][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.024][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.024][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.026][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.027][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.028][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.029][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.030][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.041][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-08 18:21:26.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.050][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-08 18:21:26.050][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.051][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.052][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-08-08 18:21:26.053][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.053][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.054][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.058][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.061][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.061][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.062][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.063][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.063][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.064][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.065][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.066][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.068][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.068][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.070][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.071][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.071][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.072][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.073][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.073][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.075][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.076][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.078][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.080][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.080][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.081][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.096][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-08 18:21:26.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.103][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-08 18:21:26.103][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.104][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.105][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-08-08 18:21:26.106][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.106][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.107][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.111][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.111][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.113][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.114][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.115][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.116][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.116][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.116][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.117][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.118][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.118][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.120][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.122][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.122][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.123][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.124][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.124][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.128][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.129][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.131][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.131][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.133][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.134][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.135][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.136][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.136][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.136][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.137][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.149][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-08 18:21:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.156][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-08 18:21:26.156][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.157][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.159][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-08-08 18:21:26.159][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.159][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.160][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.164][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.165][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.165][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.169][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.171][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.172][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.173][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.174][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.175][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.177][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.177][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.178][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.179][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.181][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.181][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.182][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.183][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.183][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.185][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.185][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.187][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.188][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.188][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.190][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.190][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.191][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.202][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-08 18:21:26.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.212][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-08 18:21:26.213][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.213][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.214][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-08-08 18:21:26.215][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.215][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.215][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.220][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.220][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.222][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.223][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.224][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.225][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.225][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.225][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.226][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.227][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.227][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.228][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.228][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.229][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.229][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.230][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.230][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.231][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.231][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.232][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.233][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.235][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.235][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.235][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.236][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.237][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.237][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.238][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.239][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.254][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-08 18:21:26.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.261][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-08 18:21:26.262][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.262][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.263][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-08-08 18:21:26.263][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.264][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.264][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.268][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.269][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.271][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.271][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.272][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.273][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.274][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.276][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.276][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.277][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.278][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.278][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.279][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.279][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.280][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.280][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.281][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.282][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.282][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.284][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.286][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.289][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.289][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.290][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.291][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.292][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.292][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.303][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-08 18:21:26.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.310][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[2025-08-08 18:21:26.310][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-08 18:21:26.311][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.311][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.312][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-08-08 18:21:26.313][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.313][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.314][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.318][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.318][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.320][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.320][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.322][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.323][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.324][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.328][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.328][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.330][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.331][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.333][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.333][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.333][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.334][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.335][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.336][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.338][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.338][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.339][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.340][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.342][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.343][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.343][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.355][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-08 18:21:26.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.365][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-08 18:21:26.366][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.366][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.368][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-08-08 18:21:26.368][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.369][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.369][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.374][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.374][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.376][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.378][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.379][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.380][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.381][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.381][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.383][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.383][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.385][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.385][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.386][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.387][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.389][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.391][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.391][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.393][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.393][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.394][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.395][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.396][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.397][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.413][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-08 18:21:26.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.420][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-08 18:21:26.420][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.421][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.423][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-08-08 18:21:26.423][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.424][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.424][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.429][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.429][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.431][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.432][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.433][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.434][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.434][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.436][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.439][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.439][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.441][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.441][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.442][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.443][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.444][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.448][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.451][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.451][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.453][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.454][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.454][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.455][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.456][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.457][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.469][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-08 18:21:26.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.476][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-08 18:21:26.476][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.476][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.478][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-08-08 18:21:26.478][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.479][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.479][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.484][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.484][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.489][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.489][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.490][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.491][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.492][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.493][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.494][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.494][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.496][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.496][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.499][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.499][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.500][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.502][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.502][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.504][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.504][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.506][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.507][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.507][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.509][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.510][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.522][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-08 18:21:26.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.536][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[2025-08-08 18:21:26.537][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-08 18:21:26.537][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.537][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.539][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-08-08 18:21:26.539][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.539][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.543][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[2025-08-08 18:21:26.544][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.546][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.547][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.547][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.548][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.549][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.551][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.552][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.555][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.556][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.556][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.557][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.559][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.561][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.563][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.563][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.564][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.564][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.565][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.565][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.566][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.581][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-08 18:21:26.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.588][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-08 18:21:26.589][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.589][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.590][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-08-08 18:21:26.591][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.591][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.591][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.596][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.597][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.598][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.599][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.599][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.599][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.600][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.601][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.603][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.605][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.606][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.611][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.611][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.612][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.612][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.613][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.615][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.617][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.617][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.619][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.620][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.620][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.620][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.621][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.622][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.623][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.635][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-08 18:21:26.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.641][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.DEBUG[2025-08-08 18:21:26.641][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-08 18:21:26.642][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.642][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.643][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-08-08 18:21:26.644][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.644][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.645][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.652][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.653][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.655][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.655][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.656][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.657][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.657][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.658][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.659][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.660][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.664][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.664][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.665][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.665][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.666][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.667][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.667][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.668][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.669][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.672][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.672][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.672][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.673][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.674][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.674][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.675][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.690][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-08 18:21:26.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:26.701][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:26.702][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:26.703][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:26.703][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:26.876][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:26.877][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:26.878][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-08-08 18:21:26.878][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:26.880][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:26.881][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:26.882][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-08-08 18:21:26.882][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.887][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-08 18:21:26.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.887][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.889][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-08-08 18:21:26.889][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.892][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.893][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.898][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.898][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.900][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.900][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.901][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.902][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.903][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.905][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.907][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.907][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.909][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.909][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.911][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.912][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.912][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.913][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.914][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.916][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.916][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.918][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.918][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.919][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.920][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.920][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.921][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.936][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-08 18:21:26.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:26.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:26.950][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-08 18:21:26.950][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:26.950][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:26.952][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-08-08 18:21:26.952][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:26.953][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:26.953][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:26.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:26.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:26.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:26.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:26.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:26.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:26.957][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[2025-08-08 18:21:26.958][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.959][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.961][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.961][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.962][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:26.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.963][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.963][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:26.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:26.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.965][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.965][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.966][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:26.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:26.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.967][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.967][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.968][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:26.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.972][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.973][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:26.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.974][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.975][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:26.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:26.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.976][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.976][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.978][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.978][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:26.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:26.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.980][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.981][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.981][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:26.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:26.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.982][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.983][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.984][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:26.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:26.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:26.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:26.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:26.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:26.995][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-08 18:21:26.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:26.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:26.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:27.005][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.006][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.007][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:27.009][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:27.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.162][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.163][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-08-08 18:21:27.164][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.312][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:27.316][biodb::testThat]
biodb.INFO [2025-08-08 18:21:27.317][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-08 18:21:27.319][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:27.320][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:27.321][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 18:21:27.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 18:21:27.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:27.332][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.333][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.333][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-08 18:21:27.334][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:27.341][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.342][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.343][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-08 18:21:27.343][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.356][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-08 18:21:27.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.366][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.366][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.366][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.367][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.369][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.369][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.370][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.376][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-08 18:21:27.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.382][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.382][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.383][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.383][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.383][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.384][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.385][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.386][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.387][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.391][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-08 18:21:27.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.394][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.399][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.400][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.400][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.400][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.401][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.402][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.403][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.403][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.404][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.408][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-08 18:21:27.408][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-08 18:21:27.409][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-08 18:21:27.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:27.440][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.441][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.442][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-08 18:21:27.442][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:27.443][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.444][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.445][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-08 18:21:27.445][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.476][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-08 18:21:27.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.489][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.489][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.490][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.490][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.493][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.493][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.494][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.498][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-08 18:21:27.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.501][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.TRACE[2025-08-08 18:21:27.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.518][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.518][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.519][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.519][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.519][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.520][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.520][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.521][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.521][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.525][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.526][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.530][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-08 18:21:27.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.536][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.536][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.536][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.537][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.539][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.543][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.547][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-08 18:21:27.548][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-08 18:21:27.548][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-08 18:21:27.551][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:27.553][biodb::testThat]
biodb.INFO [2025-08-08 18:21:27.553][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-08 18:21:27.554][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:27.554][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:27.555][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 18:21:27.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 18:21:27.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:27.565][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.565][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.566][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-08 18:21:27.566][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:27.574][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.575][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.575][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-08 18:21:27.576][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.592][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-08 18:21:27.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.598][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.598][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.599][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.599][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.599][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.602][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.602][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.603][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.607][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-08 18:21:27.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.610][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.TRACE[2025-08-08 18:21:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.612][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.613][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.613][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.613][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.616][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.616][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.616][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.616][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.617][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.620][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.624][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-08 18:21:27.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.629][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.630][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.630][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.630][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.630][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.631][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.631][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.632][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.633][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.633][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.634][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.638][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-08 18:21:27.638][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-08 18:21:27.638][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-08 18:21:27.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:27.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.651][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.651][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-08 18:21:27.651][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:27.652][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.653][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.654][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-08 18:21:27.654][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.747][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-08 18:21:27.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.754][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.755][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.755][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.758][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.759][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.763][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-08 18:21:27.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.769][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.770][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.770][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.770][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.773][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.773][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.773][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.774][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.775][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.778][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-08 18:21:27.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.785][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.786][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.786][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.786][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.789][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.789][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.790][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.795][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-08 18:21:27.796][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-08 18:21:27.796][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-08 18:21:27.799][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:27.802][biodb::testThat]
biodb.INFO [2025-08-08 18:21:27.802][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-08 18:21:27.802][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:27.803][biodb::testThat]
biodb.TRACE[2025-08-08 18:21:27.805][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 18:21:27.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 18:21:27.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:27.817][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.818][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.818][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-08-08 18:21:27.819][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-08-08 18:21:27.829][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.830][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.830][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-08-08 18:21:27.831][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.844][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-08 18:21:27.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.850][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.850][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.850][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.851][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.853][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.854][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.855][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.858][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-08 18:21:27.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.861][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[2025-08-08 18:21:27.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.864][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.864][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.865][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.867][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.867][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.869][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.872][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-08 18:21:27.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.878][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.878][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.878][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.878][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.881][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.881][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.882][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.886][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-08 18:21:27.886][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-08 18:21:27.886][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-08 18:21:27.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:27.902][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.903][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.903][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-08-08 18:21:27.903][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:27.904][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:27.905][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:27.906][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-08-08 18:21:27.906][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:27.927][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-08 18:21:27.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.933][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.933][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.933][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.934][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.935][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.936][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.936][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.937][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.938][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.941][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-08 18:21:27.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.946][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.947][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.947][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.947][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.949][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.950][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.951][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.955][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-08 18:21:27.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.960][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.960][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-08 18:21:27.961][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-08 18:21:27.961][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-08 18:21:27.961][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.962][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.963][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.964][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-08 18:21:27.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.964][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.965][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.965][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-08 18:21:27.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.968][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-08 18:21:27.969][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-08 18:21:27.969][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-08 18:21:27.975][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-08 18:21:27.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:27.977][biodb::testThat]
biodb.INFO [2025-08-08 18:21:27.977][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-08 18:21:27.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:27.978][biodb::testThat]
biodb.DEBUG[2025-08-08 18:21:27.978][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-08 18:21:27.979][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:27.979][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:27.980][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-08-08 18:21:27.980][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:27.981][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:27.981][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:27.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:27.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:27.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:27.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:27.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:27.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:27.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:27.985][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:27.986][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:27.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:27.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:27.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.987][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:27.988][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:27.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.989][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:27.989][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:27.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.990][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:27.990][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:27.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.991][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:27.991][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:27.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.992][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:27.992][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:27.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.993][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:27.993][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:27.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.994][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:27.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.995][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:27.996][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:27.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.996][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.996][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:27.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:27.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.997][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:27.998][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:27.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:27.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:27.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:28.011][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-08-08 18:21:28.011][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-08 18:21:28.014][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.015][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-08 18:21:28.015][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.015][biodb::testThat]
biodb.DEBUG[2025-08-08 18:21:28.018][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-08-08 18:21:28.018][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-08-08 18:21:28.019][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-08-08 18:21:28.019][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:28.020][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-08-08 18:21:28.021][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-08-08 18:21:28.023][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-08-08 18:21:28.023][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.023][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-08 18:21:28.024][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:28.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:28.028][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.028][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.030][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:28.030][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:28.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.031][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.031][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:28.031][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:28.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.032][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:28.033][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:28.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.034][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.034][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.035][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.035][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.035][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:28.036][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:28.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.037][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.038][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.038][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.039][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:28.039][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:28.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.040][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:28.040][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:28.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:28.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:28.052][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.055][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:28.055][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:28.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.056][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:28.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:28.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.057][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:28.057][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:28.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.058][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:28.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.059][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:28.060][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:28.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:28.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:28.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.062][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.062][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.064][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.064][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.065][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.065][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.066][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:28.066][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:28.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.067][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:28.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:28.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.068][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.070][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.071][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:28.073][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:28.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.074][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:28.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:28.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:28.075][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:28.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.076][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:28.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:28.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:28.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:28.091][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.092][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.094][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:28.094][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:28.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.095][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:28.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:28.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.096][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:28.096][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:28.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:28.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:28.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.098][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:28.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:28.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:28.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:28.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.100][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.102][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.102][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.103][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.104][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:28.105][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:28.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.105][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:28.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:28.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.106][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.108][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.111][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:28.111][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:28.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.112][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:28.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:28.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.113][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:28.113][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:28.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:28.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:28.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:28.131][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-08-08 18:21:28.132][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-08 18:21:28.132][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-08-08 18:21:28.137][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.138][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-08 18:21:28.138][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.138][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.146][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.147][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-08 18:21:28.147][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.147][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.150][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.150][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-08 18:21:28.151][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.151][biodb::testThat]
sched.DEBUG[2025-08-08 18:21:28.152][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:28.153][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.155][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-08-08 18:21:28.155][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-08-08 18:21:28.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.161][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.161][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 18:21:28.162][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.162][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-08-08 18:21:28.162][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.163][biodb::testThat]
biodb.ERROR[2025-08-08 18:21:28.167][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-08-08 18:21:28.172][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-08-08 18:21:28.176][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-08 18:21:28.176][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-08 18:21:28.176][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 18:21:28.177][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.177][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.178][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-08 18:21:28.183][biodb::testContext]
biodb.INFO [2025-08-08 18:21:28.184][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:28.184][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-08-08 18:21:28.184][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:28.185][biodb::testContext]
biodb.INFO [2025-08-08 18:21:28.185][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:28.186][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:28.187][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.188][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 18:21:28.188][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.189][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[2025-08-08 18:21:28.189][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 18:21:28.189][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.190][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 18:21:28.191][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.191][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 18:21:28.192][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 18:21:28.192][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.193][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 18:21:28.193][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 18:21:28.193][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.194][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 18:21:28.195][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.195][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 18:21:28.196][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 18:21:28.196][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 18:21:28.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.197][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[2025-08-08 18:21:28.197][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 18:21:28.197][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.198][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 18:21:28.198][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 18:21:28.199][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.199][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:28.200][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 18:21:28.200][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 18:21:28.200][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 18:21:28.200][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 18:21:28.201][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 18:21:28.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.202][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 18:21:28.202][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 18:21:28.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.203][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 18:21:28.203][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 18:21:28.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.204][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 18:21:28.204][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.205][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 18:21:28.205][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 18:21:28.206][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 18:21:28.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.207][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:28.207][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 18:21:28.212][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 18:21:28.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.213][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 18:21:28.213][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 18:21:28.213][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 18:21:28.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.215][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 18:21:28.215][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.215][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-08 18:21:28.216][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.216][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.216][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.216][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.217][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.217][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.217][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:28.217][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.218][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.218][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 18:21:28.218][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.218][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.219][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.219][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.219][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.219][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.219][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:28.219][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:28.219][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.220][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.220][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.220][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.221][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.221][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.221][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.221][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.222][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.222][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.222][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.222][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 18:21:28.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.223][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:28.224][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.224][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.224][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.224][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.225][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.225][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.225][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:28.225][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.226][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.226][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 18:21:28.226][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.226][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.227][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.227][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.227][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.227][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.227][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:28.227][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:28.227][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.228][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.228][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.229][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.229][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.229][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.230][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.230][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.230][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.230][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 18:21:28.231][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.231][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-08 18:21:28.231][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.232][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.232][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.232][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.232][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.233][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.233][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:28.233][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.234][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.234][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 18:21:28.234][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.234][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.235][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.235][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.235][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.236][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.237][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.237][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.237][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.237][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.238][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.238][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.238][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 18:21:28.239][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.239][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:28.239][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.239][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.240][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.240][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.240][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.240][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.241][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:28.241][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.241][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.242][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 18:21:28.242][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.242][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.242][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.243][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.243][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.244][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.244][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.244][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.244][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.244][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.245][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.245][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.245][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.245][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.246][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.246][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.252][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[2025-08-08 18:21:28.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.265][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 18:21:28.268][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 18:21:28.268][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 18:21:28.268][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 18:21:28.269][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:28.269][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 18:21:28.270][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:28.270][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:28.270][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 18:21:28.271][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 18:21:28.271][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:28.272][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 18:21:28.272][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:28.272][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:28.273][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 18:21:28.273][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 18:21:28.273][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 18:21:28.274][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 18:21:28.274][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:28.274][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 18:21:28.275][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 18:21:28.275][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 18:21:28.276][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 18:21:28.276][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 18:21:28.276][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 18:21:28.277][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 18:21:28.277][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 18:21:28.277][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 18:21:28.278][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 18:21:28.278][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 18:21:28.278][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 18:21:28.279][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 18:21:28.279][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 18:21:28.280][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 18:21:28.280][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 18:21:28.280][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 18:21:28.281][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 18:21:28.281][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 18:21:28.281][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 18:21:28.282][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 18:21:28.282][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 18:21:28.282][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 18:21:28.283][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 18:21:28.283][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 18:21:28.284][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 18:21:28.284][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 18:21:28.284][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 18:21:28.285][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 18:21:28.285][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 18:21:28.285][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 18:21:28.286][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 18:21:28.286][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 18:21:28.286][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 18:21:28.287][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 18:21:28.287][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 18:21:28.288][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 18:21:28.288][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 18:21:28.288][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 18:21:28.289][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 18:21:28.289][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 18:21:28.289][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 18:21:28.290][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 18:21:28.290][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 18:21:28.290][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 18:21:28.291][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 18:21:28.291][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 18:21:28.291][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:28.292][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:28.292][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 18:21:28.293][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 18:21:28.293][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 18:21:28.293][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 18:21:28.294][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 18:21:28.294][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 18:21:28.294][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 18:21:28.295][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 18:21:28.295][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 18:21:28.295][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 18:21:28.296][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 18:21:28.296][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 18:21:28.296][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 18:21:28.297][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 18:21:28.297][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 18:21:28.298][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 18:21:28.298][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:28.298][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.299][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.299][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.306][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[2025-08-08 18:21:28.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.307][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[2025-08-08 18:21:28.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.309][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[2025-08-08 18:21:28.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.310][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[2025-08-08 18:21:28.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.314][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[2025-08-08 18:21:28.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.318][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[2025-08-08 18:21:28.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.320][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[2025-08-08 18:21:28.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.322][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[2025-08-08 18:21:28.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.326][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:28.326][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-08 18:21:28.327][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.327][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.327][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.328][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.328][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.328][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.328][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.329][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-08 18:21:28.329][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 18:21:28.329][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.329][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-08 18:21:28.330][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-08 18:21:28.331][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.331][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.331][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.331][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.331][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 18:21:28.331][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.332][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.332][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.333][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.333][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-08 18:21:28.333][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-08 18:21:28.333][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.333][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.334][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.334][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-08 18:21:28.334][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-08 18:21:28.334][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:28.335][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:28.335][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-08 18:21:28.336][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:28.336][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:28.336][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:28.338][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-08 18:21:28.339][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-08 18:21:28.340][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.340][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-08-08 18:21:28.340][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.341][biodb::testThat]
sched.DEBUG[2025-08-08 18:21:28.342][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-08 18:21:28.342][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.344][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-08 18:21:28.345][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:28.346][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 [2025-08-08 18:21:28.347][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.348][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-08 18:21:28.348][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:28.356][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 [2025-08-08 18:21:28.357][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.357][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-08 18:21:28.358][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.371][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".
sched.DEBUG[2025-08-08 18:21:28.372][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 [2025-08-08 18:21:28.373][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.374][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-08 18:21:28.374][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.378][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".
sched.DEBUG[2025-08-08 18:21:28.378][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 [2025-08-08 18:21:28.379][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.379][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-08 18:21:28.380][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.383][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[2025-08-08 18:21:28.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.386][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".
sched.DEBUG[2025-08-08 18:21:28.387][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 [2025-08-08 18:21:28.388][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.389][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-08-08 18:21:28.389][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:28.393][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 [2025-08-08 18:21:28.394][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.394][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-08-08 18:21:28.395][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:28.399][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 [2025-08-08 18:21:28.399][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.400][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-08-08 18:21:28.401][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.404][FUN] Functions in observer BiodbConfig: [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 [2025-08-08 18:21:28.407][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.407][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-08-08 18:21:28.407][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.407][biodb::testThat]
sched.DEBUG[2025-08-08 18:21:28.408][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 [2025-08-08 18:21:28.409][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.410][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-08-08 18:21:28.411][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-08-08 18:21:28.415][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 [2025-08-08 18:21:28.416][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.417][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-08-08 18:21:28.417][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-08 18:21:28.422][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-08 18:21:28.423][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-08 18:21:28.423][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 18:21:28.423][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.424][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.424][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.424][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.INFO [2025-08-08 18:21:28.426][biodb::testContext]
biodb.INFO [2025-08-08 18:21:28.426][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:28.426][biodb::testContext] Test context - Test web services
biodb.INFO [2025-08-08 18:21:28.427][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:28.427][biodb::testContext]
biodb.INFO [2025-08-08 18:21:28.427][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:28.428][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:28.429][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.430][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 18:21:28.430][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.431][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 18:21:28.431][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.432][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[2025-08-08 18:21:28.432][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 18:21:28.433][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.433][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 18:21:28.434][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 18:21:28.434][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.435][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 18:21:28.435][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 18:21:28.435][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.436][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 18:21:28.437][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.437][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[2025-08-08 18:21:28.438][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 18:21:28.438][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 18:21:28.438][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 18:21:28.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.439][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 18:21:28.439][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.440][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 18:21:28.440][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 18:21:28.441][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.442][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:28.442][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 18:21:28.442][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 18:21:28.442][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 18:21:28.443][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 18:21:28.443][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 18:21:28.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.444][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[2025-08-08 18:21:28.444][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 18:21:28.444][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 18:21:28.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.445][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 18:21:28.445][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 18:21:28.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.446][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[2025-08-08 18:21:28.446][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 18:21:28.446][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.447][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 18:21:28.448][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 18:21:28.448][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 18:21:28.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.451][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.DEBUG[2025-08-08 18:21:28.452][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:28.452][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 18:21:28.457][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 18:21:28.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.458][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 18:21:28.458][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 18:21:28.459][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 18:21:28.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.460][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 18:21:28.460][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.461][self$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[2025-08-08 18:21:28.461][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.461][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.461][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.462][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.462][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.462][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.462][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:28.463][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.463][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.463][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 18:21:28.463][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:28.464][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.465][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.465][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.466][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.466][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.466][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.466][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.467][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.467][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.467][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.467][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 18:21:28.468][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.468][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:28.468][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.469][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.469][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.469][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.469][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.470][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.470][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:28.470][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.470][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.471][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 18:21:28.471][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.471][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.471][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.472][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.472][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.472][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.472][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:28.472][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:28.472][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.472][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.473][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.473][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.473][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.474][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.474][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.474][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.474][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.475][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.475][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 18:21:28.475][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.476][self$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[2025-08-08 18:21:28.476][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.476][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.476][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.477][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.477][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.477][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.477][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:28.478][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.478][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.478][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 18:21:28.479][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.479][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.479][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.479][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.480][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.480][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.480][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.481][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.481][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.481][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.481][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.481][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.482][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.482][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.482][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.483][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 18:21:28.483][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.483][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:28.484][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.484][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.484][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.484][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.485][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.485][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.485][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:28.485][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.486][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.486][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 18:21:28.486][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.486][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.487][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.487][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.487][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.488][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.489][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.489][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.490][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.490][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.490][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.490][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.491][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.491][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[2025-08-08 18:21:28.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.492][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[2025-08-08 18:21:28.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.494][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[2025-08-08 18:21:28.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.497][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[2025-08-08 18:21:28.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.499][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[2025-08-08 18:21:28.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.501][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[2025-08-08 18:21:28.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.502][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[2025-08-08 18:21:28.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.505][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.DEBUG[2025-08-08 18:21:28.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.507][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[2025-08-08 18:21:28.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.509][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[2025-08-08 18:21:28.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.510][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[2025-08-08 18:21:28.510][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 18:21:28.511][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 18:21:28.511][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 18:21:28.512][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 18:21:28.512][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:28.512][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 18:21:28.513][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:28.513][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:28.514][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 18:21:28.514][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 18:21:28.514][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:28.515][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 18:21:28.515][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:28.515][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:28.516][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 18:21:28.516][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 18:21:28.516][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 18:21:28.517][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 18:21:28.517][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:28.518][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 18:21:28.518][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 18:21:28.518][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 18:21:28.519][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 18:21:28.519][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 18:21:28.520][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 18:21:28.520][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 18:21:28.520][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 18:21:28.521][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 18:21:28.521][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 18:21:28.521][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 18:21:28.522][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 18:21:28.522][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 18:21:28.523][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 18:21:28.523][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 18:21:28.523][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 18:21:28.524][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 18:21:28.524][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 18:21:28.524][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 18:21:28.525][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 18:21:28.525][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 18:21:28.526][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 18:21:28.526][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 18:21:28.526][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 18:21:28.527][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 18:21:28.527][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 18:21:28.527][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 18:21:28.528][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 18:21:28.528][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 18:21:28.529][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 18:21:28.529][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 18:21:28.529][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 18:21:28.530][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 18:21:28.530][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 18:21:28.530][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 18:21:28.531][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 18:21:28.531][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 18:21:28.534][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 18:21:28.535][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 18:21:28.535][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 18:21:28.535][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 18:21:28.536][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 18:21:28.536][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 18:21:28.537][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 18:21:28.537][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 18:21:28.537][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 18:21:28.538][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 18:21:28.538][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:28.538][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:28.539][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 18:21:28.539][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 18:21:28.540][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 18:21:28.540][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 18:21:28.540][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 18:21:28.541][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 18:21:28.541][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 18:21:28.541][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 18:21:28.542][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 18:21:28.542][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 18:21:28.543][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 18:21:28.543][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 18:21:28.543][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 18:21:28.544][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 18:21:28.544][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 18:21:28.545][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 18:21:28.545][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:28.545][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.546][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.546][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.548][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[2025-08-08 18:21:28.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.550][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[2025-08-08 18:21:28.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.551][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[2025-08-08 18:21:28.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.553][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[2025-08-08 18:21:28.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.556][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[2025-08-08 18:21:28.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.557][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[2025-08-08 18:21:28.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.559][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[2025-08-08 18:21:28.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.561][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[2025-08-08 18:21:28.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.562][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[2025-08-08 18:21:28.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.569][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.DEBUG[2025-08-08 18:21:28.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.572][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.DEBUG[2025-08-08 18:21:28.573][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:28.573][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-08 18:21:28.574][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.574][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.574][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.575][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.575][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.575][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.576][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.576][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-08 18:21:28.576][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 18:21:28.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-08 18:21:28.577][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-08 18:21:28.578][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.578][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.578][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.578][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.578][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 18:21:28.579][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.579][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.579][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.579][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.580][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.580][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.580][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-08 18:21:28.580][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-08 18:21:28.580][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.581][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.581][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.581][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-08 18:21:28.581][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-08 18:21:28.582][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:28.582][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:28.583][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-08 18:21:28.583][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:28.583][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:28.584][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:28.585][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-08 18:21:28.587][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-08 18:21:28.587][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.588][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-08-08 18:21:28.588][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.588][biodb::testThat]
sched.DEBUG[2025-08-08 18:21:28.589][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-08 18:21:28.590][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.592][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-08 18:21:28.592][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:28.593][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-08-08 18:21:28.594][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.595][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-08 18:21:28.595][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-08-08 18:21:28.598][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-08 18:21:28.598][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-08 18:21:28.599][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 18:21:28.599][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.599][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.600][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-08 18:21:28.601][biodb::testContext]
biodb.INFO [2025-08-08 18:21:28.602][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:28.602][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-08-08 18:21:28.602][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 18:21:28.602][biodb::testContext]
biodb.INFO [2025-08-08 18:21:28.603][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:28.604][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:28.605][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.606][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 18:21:28.606][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.607][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[2025-08-08 18:21:28.607][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 18:21:28.607][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.608][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 18:21:28.608][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.609][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[2025-08-08 18:21:28.609][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 18:21:28.610][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 18:21:28.610][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.611][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 18:21:28.611][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 18:21:28.611][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.612][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[2025-08-08 18:21:28.612][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 18:21:28.613][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.614][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 18:21:28.614][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 18:21:28.614][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 18:21:28.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.615][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[2025-08-08 18:21:28.615][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 18:21:28.615][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.616][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 18:21:28.617][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 18:21:28.617][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 18:21:28.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.617][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[2025-08-08 18:21:28.618][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:28.618][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 18:21:28.618][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 18:21:28.619][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 18:21:28.619][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 18:21:28.622][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 18:21:28.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.623][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 18:21:28.623][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 18:21:28.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.624][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 18:21:28.624][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 18:21:28.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.625][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 18:21:28.626][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 18:21:28.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.626][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[2025-08-08 18:21:28.627][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 18:21:28.627][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 18:21:28.627][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 18:21:28.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.628][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 18:21:28.628][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 18:21:28.633][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 18:21:28.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.634][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 18:21:28.634][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 18:21:28.635][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 18:21:28.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.636][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 18:21:28.636][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.636][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-08 18:21:28.637][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.637][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.637][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.638][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.638][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.638][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.638][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:28.639][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.639][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.639][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 18:21:28.639][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:28.640][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.641][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.642][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.642][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.642][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.642][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.643][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.643][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.643][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.643][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 18:21:28.644][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.644][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:28.645][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.645][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.645][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.645][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.646][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.646][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.646][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:28.646][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.647][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.647][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 18:21:28.647][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.647][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.648][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.649][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.649][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.649][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.650][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.650][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.650][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.650][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.651][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.651][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.651][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 18:21:28.652][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.652][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-08 18:21:28.652][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.652][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.653][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.653][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.653][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.653][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.654][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 18:21:28.654][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.654][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.654][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 18:21:28.655][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.655][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.655][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.655][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.656][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.656][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.656][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.657][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.657][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.657][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.657][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.658][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.658][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.658][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.658][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.659][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 18:21:28.659][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.660][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 18:21:28.660][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.660][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.660][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.661][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.661][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.661][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.661][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 18:21:28.662][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.662][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.662][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 18:21:28.662][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.663][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.663][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.663][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.663][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 18:21:28.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.664][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.664][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.665][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.665][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.665][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.665][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.666][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.666][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 18:21:28.666][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.667][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.668][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[2025-08-08 18:21:28.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.671][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[2025-08-08 18:21:28.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.673][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".
biodb.DEBUG[2025-08-08 18:21:28.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.674][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[2025-08-08 18:21:28.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.675][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[2025-08-08 18:21:28.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.676][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[2025-08-08 18:21:28.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.677][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[2025-08-08 18:21:28.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.679][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[2025-08-08 18:21:28.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.680][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[2025-08-08 18:21:28.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.684][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[2025-08-08 18:21:28.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.685][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[2025-08-08 18:21:28.685][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 18:21:28.685][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 18:21:28.686][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 18:21:28.686][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 18:21:28.687][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:28.687][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 18:21:28.687][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:28.688][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:28.688][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 18:21:28.688][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 18:21:28.689][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:28.689][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 18:21:28.689][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 18:21:28.690][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 18:21:28.690][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 18:21:28.691][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 18:21:28.691][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 18:21:28.691][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 18:21:28.692][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:28.692][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 18:21:28.692][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 18:21:28.693][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 18:21:28.693][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 18:21:28.693][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 18:21:28.694][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 18:21:28.694][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 18:21:28.695][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 18:21:28.695][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 18:21:28.695][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 18:21:28.696][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 18:21:28.696][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 18:21:28.696][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 18:21:28.697][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 18:21:28.697][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 18:21:28.697][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 18:21:28.698][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 18:21:28.698][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 18:21:28.699][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 18:21:28.699][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 18:21:28.699][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 18:21:28.702][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 18:21:28.702][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 18:21:28.703][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 18:21:28.703][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 18:21:28.703][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 18:21:28.704][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 18:21:28.704][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 18:21:28.704][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 18:21:28.705][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 18:21:28.705][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 18:21:28.706][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 18:21:28.706][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 18:21:28.706][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 18:21:28.707][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 18:21:28.707][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 18:21:28.707][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 18:21:28.708][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 18:21:28.708][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 18:21:28.708][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 18:21:28.709][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 18:21:28.709][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 18:21:28.709][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 18:21:28.710][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 18:21:28.710][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 18:21:28.711][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 18:21:28.711][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 18:21:28.711][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:28.712][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:28.712][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 18:21:28.712][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 18:21:28.713][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 18:21:28.713][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 18:21:28.713][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 18:21:28.714][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 18:21:28.714][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 18:21:28.714][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 18:21:28.715][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 18:21:28.715][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 18:21:28.716][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 18:21:28.716][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 18:21:28.716][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 18:21:28.717][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 18:21:28.717][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 18:21:28.717][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 18:21:28.718][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-08-08 18:21:28.718][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 18:21:28.719][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.719][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.719][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.DEBUG[2025-08-08 18:21:28.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.733][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.DEBUG[2025-08-08 18:21:28.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.744][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[2025-08-08 18:21:28.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 18:21:28.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 18:21:28.747][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-08 18:21:28.747][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-08 18:21:28.748][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.748][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.748][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.749][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 18:21:28.749][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.749][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.750][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.750][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-08 18:21:28.750][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 18:21:28.750][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-08 18:21:28.751][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-08 18:21:28.752][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 18:21:28.752][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 18:21:28.752][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 18:21:28.752][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 18:21:28.752][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 18:21:28.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.753][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.753][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 18:21:28.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 18:21:28.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 18:21:28.754][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 18:21:28.754][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-08 18:21:28.754][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-08 18:21:28.754][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 18:21:28.755][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 18:21:28.755][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 18:21:28.755][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-08 18:21:28.755][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-08 18:21:28.755][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 18:21:28.756][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 18:21:28.756][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-08 18:21:28.757][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 18:21:28.757][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 18:21:28.758][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 18:21:28.759][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-08 18:21:28.760][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-08 18:21:28.761][biodb::testThat]
biodb.INFO [2025-08-08 18:21:28.761][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-08-08 18:21:28.761][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 18:21:28.762][biodb::testThat]
sched.DEBUG[2025-08-08 18:21:28.762][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-08-08 18:21:28.763][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.765][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-08-08 18:21:28.765][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-08-08 18:21:28.767][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 [2025-08-08 18:21:28.768][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-08-08 18:21:28.768][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-08-08 18:21:28.768][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.770][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-08-08 18:21:28.773][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-08-08 18:21:28.774][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-08-08 18:21:28.777][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-08-08 18:21:28.778][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 18:21:28.778][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-08 18:21:28.778][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-08 18:21:28.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 18:21:28.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 18:21:28.784][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.786][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:28.786][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:28.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-08 18:21:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-08 18:21:28.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.788][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:28.789][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:28.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 18:21:28.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 18:21:28.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.791][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 18:21:28.791][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 18:21:28.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.792][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.795][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 18:21:28.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.796][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.796][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.797][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.797][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 18:21:28.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.798][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:28.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:28.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.799][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-08 18:21:28.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-08 18:21:28.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 18:21:28.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.803][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.803][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 18:21:28.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 18:21:28.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.805][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:28.805][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:28.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.806][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-08 18:21:28.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-08 18:21:28.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.807][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:28.807][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:28.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 18:21:28.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 18:21:28.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 18:21:28.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 18:21:28.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 18:21:28.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 18:21:28.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 18:21:28.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 18:21:28.820][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-08-08 18:21:28.821][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-08-08 18:21:28.821][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-08 18:21:28.822][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 18:21:28.822][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 18:21:28.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 18:21:28.822][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 18:21:28.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 18:21:28.823][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 18:21:28.823][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.506   0.256   6.557 

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.6970.2330.997
ChebiEntry0.0830.0080.104