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This page was generated on 2025-09-04 12:05 -0400 (Thu, 04 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4822
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4617
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4564
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4541
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 206/2321HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-09-03 13:45 -0400 (Wed, 03 Sep 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on lconway

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-09-03 19:25:24 -0400 (Wed, 03 Sep 2025)
EndedAt: 2025-09-03 19:26:48 -0400 (Wed, 03 Sep 2025)
EllapsedTime: 84.2 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 (2025-06-13)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


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

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 (2025-06-13) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-09-03 19:26:20.077][biodb::testContext]
biodb.INFO [2025-09-03 19:26:20.081][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:20.082][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-03 19:26:20.084][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:20.085][biodb::testContext]
biodb.INFO [2025-09-03 19:26:20.092][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:20.095][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:20.105][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:20.107][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 19:26:20.108][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 19:26:20.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.114][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 19:26:20.136][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 19:26:20.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.142][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 19:26:20.144][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 19:26:20.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.149][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 19:26:20.151][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 19:26:20.152][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 19:26:20.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.156][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[2025-09-03 19:26:20.157][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 19:26:20.159][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 19:26:20.160][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 19:26:20.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.164][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 19:26:20.165][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 19:26:20.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.170][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 19:26:20.171][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 19:26:20.173][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 19:26:20.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.178][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 19:26:20.179][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 19:26:20.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.184][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 19:26:20.186][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 19:26:20.187][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 19:26:20.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.192][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:20.193][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 19:26:20.195][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 19:26:20.196][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 19:26:20.197][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 19:26:20.199][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 19:26:20.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.202][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.DEBUG[2025-09-03 19:26:20.203][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 19:26:20.205][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 19:26:20.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.209][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 19:26:20.211][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 19:26:20.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.214][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[2025-09-03 19:26:20.216][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 19:26:20.217][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 19:26:20.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.222][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 19:26:20.223][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 19:26:20.225][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 19:26:20.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.229][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.DEBUG[2025-09-03 19:26:20.230][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:20.232][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 19:26:20.257][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 19:26:20.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.263][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 19:26:20.264][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 19:26:20.266][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 19:26:20.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.274][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 19:26:20.329][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.351][self$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[2025-09-03 19:26:20.353][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.354][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:20.356][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.357][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.359][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.360][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.361][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:20.362][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:20.364][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.365][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 19:26:20.367][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:20.368][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.370][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.372][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:20.372][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:20.372][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:20.372][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:20.372][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:20.373][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:20.374][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.375][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.376][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:20.378][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.379][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.380][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.381][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.383][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:20.384][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:20.385][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.386][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.388][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 19:26:20.390][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.392][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:20.393][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.394][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:20.396][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.397][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.398][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.400][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.401][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:20.403][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:20.404][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.405][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 19:26:20.406][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:20.408][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.409][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.410][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:20.410][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:20.410][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:20.410][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:20.410][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:20.411][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:20.412][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.415][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:20.417][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.418][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.419][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.420][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.422][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:20.423][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:20.424][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.425][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.427][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 19:26:20.428][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.430][self$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[2025-09-03 19:26:20.431][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.432][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:20.433][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.434][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.435][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.437][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.438][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:20.439][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:20.440][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.442][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 19:26:20.443][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:20.444][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.446][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.447][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.448][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:20.449][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.451][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.452][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:20.453][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.454][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.456][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.457][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.458][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:20.459][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:20.460][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.462][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.463][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 19:26:20.466][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.467][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:20.468][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.469][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:20.471][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.472][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.473][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.474][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.476][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:20.477][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:20.478][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.480][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 19:26:20.481][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:20.483][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.484][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.485][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.487][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:20.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.490][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:20.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.493][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.494][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.495][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.496][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:20.498][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:20.499][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.501][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:20.505][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:20.506][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.507][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[2025-09-03 19:26:20.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.553][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[2025-09-03 19:26:20.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.559][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[2025-09-03 19:26:20.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.564][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[2025-09-03 19:26:20.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.570][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[2025-09-03 19:26:20.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.611][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[2025-09-03 19:26:20.613][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 19:26:20.619][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 19:26:20.621][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 19:26:20.623][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 19:26:20.625][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:20.627][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 19:26:20.629][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:20.632][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:20.634][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 19:26:20.636][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 19:26:20.638][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:20.641][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 19:26:20.644][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:20.646][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:20.649][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 19:26:20.651][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 19:26:20.653][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 19:26:20.655][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 19:26:20.657][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:20.659][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 19:26:20.661][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 19:26:20.663][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 19:26:20.664][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 19:26:20.666][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 19:26:20.669][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 19:26:20.670][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 19:26:20.672][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 19:26:20.674][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 19:26:20.676][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 19:26:20.678][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 19:26:20.680][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 19:26:20.682][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 19:26:20.684][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 19:26:20.686][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 19:26:20.688][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 19:26:20.690][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 19:26:20.691][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 19:26:20.693][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 19:26:20.695][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 19:26:20.697][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 19:26:20.699][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 19:26:20.701][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 19:26:20.703][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 19:26:20.705][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 19:26:20.707][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 19:26:20.709][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 19:26:20.711][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 19:26:20.713][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 19:26:20.715][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 19:26:20.717][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 19:26:20.719][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 19:26:20.720][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 19:26:20.722][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 19:26:20.724][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 19:26:20.727][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 19:26:20.729][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 19:26:20.731][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 19:26:20.733][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 19:26:20.735][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 19:26:20.737][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 19:26:20.739][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 19:26:20.742][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 19:26:20.744][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 19:26:20.746][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 19:26:20.748][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 19:26:20.750][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 19:26:20.751][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:20.753][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:20.755][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 19:26:20.757][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 19:26:20.759][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 19:26:20.761][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 19:26:20.763][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 19:26:20.765][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 19:26:20.767][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 19:26:20.769][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 19:26:20.771][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 19:26:20.773][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 19:26:20.775][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 19:26:20.777][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 19:26:20.779][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 19:26:20.781][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 19:26:20.783][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 19:26:20.792][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 19:26:20.795][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:20.799][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:20.801][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.804][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.837][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[2025-09-03 19:26:20.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:20.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.944][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[2025-09-03 19:26:20.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:20.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:20.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:20.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:20.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:20.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:20.951][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[2025-09-03 19:26:20.954][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:20.966][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 19:26:20.968][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.970][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.971][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.973][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:20.974][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.975][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.976][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.978][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 19:26:20.979][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 19:26:20.980][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:20.982][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:20.983][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 19:26:20.984][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 19:26:20.985][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 19:26:20.987][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:20.988][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:20.988][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:20.988][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:20.989][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 19:26:20.991][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.993][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:20.995][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:20.996][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:20.997][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:20.998][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 19:26:20.998][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 19:26:20.999][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:21.000][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:21.002][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:21.003][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 19:26:21.003][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 19:26:21.012][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:21.015][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:21.018][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 19:26:21.020][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:21.022][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:21.024][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:21.057][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 19:26:21.089][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 19:26:21.100][biodb::testThat]
biodb.INFO [2025-09-03 19:26:21.102][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-03 19:26:21.103][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:21.105][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:21.111][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-03 19:26:21.114][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:21.118][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:21.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:21.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:21.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:21.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:21.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:21.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:21.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:21.164][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.170][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.195][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:21.197][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:21.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.200][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:21.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.241][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:21.243][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:21.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.245][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.247][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:21.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:21.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:21.253][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:21.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.255][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:21.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:21.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.263][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.266][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:21.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:21.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.281][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.284][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:21.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:21.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.290][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:21.291][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.294][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.296][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:21.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.302][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.303][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.306][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.313][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:21.314][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:21.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.317][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:21.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:21.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.337][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:21.338][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:21.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.341][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.343][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:21.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:21.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:21.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:21.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.353][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.355][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:21.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:21.456][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-03 19:26:21.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:21.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:21.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:21.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:21.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:21.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.532][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 19:26:21.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 19:26:21.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.537][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 19:26:21.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 19:26:21.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.541][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 19:26:21.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 19:26:21.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.545][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 19:26:21.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 19:26:21.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.662][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.666][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:21.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:21.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.705][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:21.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:21.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:21.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.736][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:21.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:21.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.743][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:21.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:21.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:21.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:21.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.752][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.753][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:21.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:21.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.770][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:21.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:21.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:21.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:21.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:21.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:21.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.788][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:21.789][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:21.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.792][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.793][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:21.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:21.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.828][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.830][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.833][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:21.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.883][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.885][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.888][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:21.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.906][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:21.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:21.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:21.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:21.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:21.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:21.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.923][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:21.924][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:21.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.927][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.929][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:21.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:21.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.947][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 19:26:21.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:21.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:21.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:21.997][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 19:26:21.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.002][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.007][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.008][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.011][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.012][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.030][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.036][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.042][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.047][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.049][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.051][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.053][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.069][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.074][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.079][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.084][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.086][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.088][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.121][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.122][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.125][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.159][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.161][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.163][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.180][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.182][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.185][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.192][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:22.194][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:22.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.213][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:22.214][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:22.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.217][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.225][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.226][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.229][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.238][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.248][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.253][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.261][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:22.262][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:22.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.275][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.277][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.285][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.286][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.288][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.295][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.298][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.305][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.306][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.309][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:22.320][biodb::testThat]
biodb.INFO [2025-09-03 19:26:22.321][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-03 19:26:22.323][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:22.324][biodb::testThat]
biodb.DEBUG[2025-09-03 19:26:22.341][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-03 19:26:22.349][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:22.354][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:22.360][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-03 19:26:22.361][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:22.392][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:22.393][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:22.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:22.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:22.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:22.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:22.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:22.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:22.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:22.412][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.415][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.450][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:22.452][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:22.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.454][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:22.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:22.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.461][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:22.463][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:22.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.465][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:22.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:22.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.471][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.472][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.475][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:22.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:22.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.482][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.483][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.486][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:22.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.492][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.494][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.496][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.497][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:22.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.502][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:22.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:22.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.506][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.508][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:22.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:22.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.517][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.524][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.525][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.527][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.535][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:22.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.538][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.540][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:22.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:22.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.545][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.551][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:22.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:22.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:22.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:22.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:22.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:22.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:22.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:22.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:22.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:22.612][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-03 19:26:22.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-03 19:26:22.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-03 19:26:22.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-03 19:26:22.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-03 19:26:22.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-03 19:26:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-03 19:26:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:22.639][biodb::testThat]
biodb.INFO [2025-09-03 19:26:22.641][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-03 19:26:22.642][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:22.644][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:22.648][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.649][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.652][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:22.653][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-03 19:26:22.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:22.705][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-03 19:26:22.712][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 19:26:22.736][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:22.743][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 19:26:22.745][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:22.773][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 [2025-09-03 19:26:22.825][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:22.829][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:22.831][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:22.833][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-03 19:26:22.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.855][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:22.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.858][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.859][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:22.860][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:22.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.863][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:22.869][biodb::testThat]
biodb.INFO [2025-09-03 19:26:22.871][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-03 19:26:22.872][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:22.874][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:22.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:22.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:22.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:22.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:22.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:23.004][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 [2025-09-03 19:26:23.007][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:23.011][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:23.012][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-03 19:26:23.037][biodb::testThat]
biodb.INFO [2025-09-03 19:26:23.038][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-03 19:26:23.040][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:23.041][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:23.070][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:23.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:23.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:23.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.102][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 19:26:23.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 19:26:23.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.117][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 19:26:23.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 19:26:23.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:23.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:23.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:23.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:23.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:23.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:23.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.186][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.193][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 19:26:23.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.198][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 19:26:23.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 19:26:23.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:23.204][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 19:26:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 19:26:23.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:23.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:23.217][biodb::testThat]
biodb.INFO [2025-09-03 19:26:23.218][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-03 19:26:23.220][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:23.221][biodb::testThat]
biodb.INFO [2025-09-03 19:26:23.233][biodb::testThat]
biodb.INFO [2025-09-03 19:26:23.234][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-03 19:26:23.235][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:23.237][biodb::testThat]
biodb.INFO [2025-09-03 19:26:23.247][biodb::testThat]
biodb.INFO [2025-09-03 19:26:23.248][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-03 19:26:23.249][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:23.251][biodb::testThat]
biodb.DEBUG[2025-09-03 19:26:23.255][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-03 19:26:23.995][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-03 19:26:25.287][biodb::testThat]
biodb.INFO [2025-09-03 19:26:25.288][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-03 19:26:25.290][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:25.291][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:25.301][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:25.303][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:25.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.305][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.307][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:25.308][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:25.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.310][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:25.312][biodb::testThat]
biodb.INFO [2025-09-03 19:26:25.313][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-09-03 19:26:25.314][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:25.315][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:25.332][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:25.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.339][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:25.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:25.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:25.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:25.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:25.496][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 [2025-09-03 19:26:25.499][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:25.503][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:25.505][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:25.618][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 [2025-09-03 19:26:25.622][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:25.626][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:25.628][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-03 19:26:25.649][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 19:26:25.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 19:26:25.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:25.695][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 [2025-09-03 19:26:25.699][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:25.702][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 19:26:25.704][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:25.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:25.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:25.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:25.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:25.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:25.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:25.719][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[2025-09-03 19:26:25.720][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-03 19:26:25.786][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:25.789][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:25.793][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-03 19:26:25.794][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:25.796][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:25.798][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:25.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:25.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:25.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:25.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:25.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:25.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:25.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:25.818][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.822][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.829][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:25.830][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:25.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.833][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.834][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:25.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:25.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.839][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:25.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:25.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.843][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:25.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:25.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.850][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:25.852][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:25.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.854][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:25.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:25.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.861][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:25.863][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:25.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.865][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:25.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:25.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.873][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:25.874][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:25.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.879][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:25.880][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.883][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.885][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:25.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:25.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:25.892][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:25.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:25.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:25.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.901][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:25.903][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:25.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.905][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.907][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:25.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:25.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.912][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:25.920][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:25.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.922][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:25.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:25.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:25.930][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:25.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.933][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.934][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:25.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:25.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:25.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:25.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:25.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:25.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:25.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:25.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:25.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:25.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:25.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:25.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:25.988][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-03 19:26:26.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:26.020][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:26.023][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:26.026][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 19:26:26.028][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:26.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:26.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:26.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:26.110][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-03 19:26:26.111][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:26.114][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:26.117][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-03 19:26:26.122][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:26.123][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:26.125][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:26.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:26.144][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.154][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:26.156][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:26.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.160][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:26.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:26.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.166][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:26.167][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:26.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.170][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:26.178][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:26.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.181][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:26.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:26.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.188][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.192][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.199][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.200][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.202][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.204][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:26.206][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.208][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.210][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:26.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.216][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.217][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.227][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.228][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.231][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.238][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.239][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.243][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.248][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:26.249][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:26.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.252][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:26.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:26.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:26.320][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-03 19:26:26.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:26.365][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 [2025-09-03 19:26:26.368][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:26.371][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:26.372][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:26.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:26.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:26.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.420][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[2025-09-03 19:26:26.421][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-03 19:26:26.423][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:26.425][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:26.428][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-03 19:26:26.430][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:26.432][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:26.433][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:26.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.449][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[2025-09-03 19:26:26.460][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.462][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.465][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.471][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:26.473][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:26.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.475][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.477][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:26.479][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:26.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.481][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.483][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:26.485][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:26.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.488][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.490][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.491][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.494][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.495][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.496][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.498][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.500][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:26.501][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.504][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.505][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.509][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.511][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.512][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.515][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.522][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.523][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.526][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.534][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:26.535][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:26.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.537][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:26.588][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-03 19:26:26.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:26.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:26.641][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-03 19:26:26.643][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:26.645][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:26.649][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-03 19:26:26.650][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:26.652][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:26.654][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:26.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:26.675][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.676][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.679][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.687][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:26.689][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:26.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.691][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.693][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:26.695][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:26.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.697][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.699][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:26.701][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:26.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.703][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.706][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.709][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.710][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.712][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.715][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:26.716][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.719][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.722][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.726][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.727][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.730][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.738][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.740][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.742][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.744][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:26.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:26.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.753][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:26.816][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-03 19:26:26.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:26.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:26.861][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-03 19:26:26.863][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:26.865][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:26.869][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-03 19:26:26.871][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:26.873][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:26.874][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:26.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:26.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:26.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:26.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:26.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:26.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:26.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:26.896][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.898][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.901][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.909][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:26.911][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:26.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.913][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.915][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:26.917][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:26.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.919][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.921][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:26.923][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:26.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.925][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.927][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.928][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:26.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.931][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.933][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.934][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:26.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.937][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.938][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:26.940][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:26.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.942][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.944][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.945][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:26.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.948][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.949][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.951][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:26.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:26.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.962][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.964][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.968][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:26.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:26.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:26.975][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:26.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:26.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:26.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:26.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:26.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.039][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-03 19:26:27.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:27.079][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-03 19:26:27.081][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:27.083][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:27.089][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-03 19:26:27.091][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:27.093][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:27.094][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:27.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:27.112][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.114][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.116][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.127][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.129][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.134][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.138][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.140][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.145][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.146][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.155][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.156][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.166][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.175][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.183][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.184][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.187][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.189][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.193][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.204][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.206][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.208][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.216][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.218][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.222][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.227][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.229][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.231][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.233][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.292][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-03 19:26:27.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:27.326][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-03 19:26:27.328][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:27.330][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:27.335][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-03 19:26:27.337][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:27.339][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:27.341][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:27.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:27.368][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.370][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.372][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.380][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.381][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.384][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.385][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.390][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.391][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.394][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.395][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.404][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.411][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.414][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.420][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.422][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.424][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.425][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.430][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.431][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.434][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.435][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.440][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.441][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.444][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.451][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.452][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.455][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.461][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.462][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.464][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.471][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.472][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.475][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.477][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.544][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-03 19:26:27.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:27.576][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-03 19:26:27.577][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:27.580][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:27.584][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-03 19:26:27.585][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:27.587][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:27.589][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:27.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:27.607][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.611][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.618][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.619][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.621][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.623][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.628][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.629][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.630][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.632][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.638][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.639][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.648][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.649][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.652][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.653][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.658][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.660][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.662][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.664][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.665][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.667][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.669][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.673][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.674][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.677][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.684][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.693][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.696][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.704][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.705][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.708][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.709][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.714][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.716][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.718][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.720][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.771][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-03 19:26:27.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:27.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:27.803][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-03 19:26:27.804][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:27.807][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:27.811][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-03 19:26:27.813][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:27.815][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:27.816][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:27.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:27.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:27.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:27.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:27.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:27.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:27.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:27.834][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.836][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.839][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.846][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.850][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.852][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:27.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:27.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.880][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.882][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.884][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.886][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:27.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:27.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.892][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.893][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:27.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:27.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.903][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.904][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.906][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:27.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.913][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.915][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:27.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.918][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.919][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.921][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.923][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.925][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:27.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:27.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.933][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:27.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.942][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.944][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.946][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:27.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:27.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.953][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.954][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.956][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.958][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:27.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:27.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.964][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:27.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:27.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:27.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:27.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:27.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:27.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.027][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-03 19:26:28.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:28.081][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-03 19:26:28.082][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:28.084][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:28.088][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-03 19:26:28.090][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:28.093][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:28.096][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:28.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:28.116][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.117][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.120][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.127][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.128][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.131][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.132][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.136][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.140][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.145][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:28.147][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:28.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.149][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:28.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:28.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.156][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.157][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.160][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.167][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.169][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.171][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.172][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.173][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.175][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.177][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.181][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.182][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.184][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.191][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.192][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.194][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.201][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.203][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.205][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.207][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:28.212][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:28.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.214][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:28.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:28.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.281][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-03 19:26:28.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.310][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[2025-09-03 19:26:28.312][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-03 19:26:28.313][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:28.314][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:28.319][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-03 19:26:28.320][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:28.322][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:28.324][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:28.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:28.341][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.343][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.345][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.352][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.353][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.355][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.362][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.364][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.366][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.368][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.373][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:28.374][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:28.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.377][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:28.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:28.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.386][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.388][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.395][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.397][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.399][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.401][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.402][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.405][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.413][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.423][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.430][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.431][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.433][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.440][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.442][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.444][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.446][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:28.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:28.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.456][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.458][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:28.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:28.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.516][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-03 19:26:28.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:28.550][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-03 19:26:28.552][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:28.554][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:28.559][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-03 19:26:28.561][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:28.563][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:28.564][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:28.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:28.585][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.587][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.591][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.610][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.612][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.615][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.617][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.623][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.625][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.628][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.636][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:28.638][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:28.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.640][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:28.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.648][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.649][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.652][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.660][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.662][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.664][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.666][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.667][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.669][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.670][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.675][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.678][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.684][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.686][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.688][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.696][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.698][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.700][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.702][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:28.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:28.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.711][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.713][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:28.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:28.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.771][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-03 19:26:28.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:28.813][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-03 19:26:28.814][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:28.816][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:28.821][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-03 19:26:28.822][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:28.824][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:28.825][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:28.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:28.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:28.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:28.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:28.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:28.839][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:28.841][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[2025-09-03 19:26:28.844][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.846][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.849][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.856][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.857][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.861][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:28.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:28.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.867][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.868][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.870][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:28.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:28.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:28.878][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:28.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.881][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.883][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:28.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.885][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.887][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.888][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:28.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.891][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.893][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.894][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.898][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:28.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:28.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.903][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.904][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.906][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:28.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.911][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.912][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.914][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.916][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:28.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:28.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.922][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.923][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.926][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.927][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:28.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:28.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.933][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:28.934][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:28.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.937][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:28.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:28.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:28.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:28.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:28.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:28.998][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-03 19:26:29.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:29.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:29.032][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-03 19:26:29.034][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:29.036][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:29.039][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-03 19:26:29.040][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:29.041][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:29.043][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:29.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:29.060][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.062][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.064][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.071][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.073][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.075][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.077][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.082][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.083][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.085][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:29.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:29.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.097][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.099][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.103][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.105][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.106][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.109][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.110][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.112][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.115][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.116][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.122][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.123][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.125][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.144][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.146][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.149][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.158][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.159][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.162][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.163][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.168][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:29.170][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:29.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.173][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:29.228][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-03 19:26:29.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:29.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.257][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[2025-09-03 19:26:29.258][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-03 19:26:29.259][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:29.262][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:29.266][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-03 19:26:29.267][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:29.269][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:29.270][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:29.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:29.289][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.291][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.293][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.301][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.302][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.304][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.306][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.318][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.322][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.323][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.328][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:29.329][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:29.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.331][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:29.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:29.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.336][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.338][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.340][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.345][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.346][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.348][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.350][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.352][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.354][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.356][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.361][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.362][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.370][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.380][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.381][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.384][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.385][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.390][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:29.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:29.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.395][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:29.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:29.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:29.449][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-03 19:26:29.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:29.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:29.493][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-03 19:26:29.495][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:29.497][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:29.502][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-03 19:26:29.503][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:29.505][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:29.507][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:29.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:29.528][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.530][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.533][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.541][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.542][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.545][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.547][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.553][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.555][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.557][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.559][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.565][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:29.566][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:29.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.569][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:29.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:29.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.578][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.580][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.582][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.588][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.590][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.592][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.594][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.596][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.599][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.601][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.607][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.609][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.612][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.620][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.621][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.633][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.634][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.637][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.639][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.645][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:29.647][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:29.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.649][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.651][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:29.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:29.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:29.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:29.762][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-03 19:26:29.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:29.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:29.797][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-03 19:26:29.799][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:29.801][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:29.806][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-03 19:26:29.807][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:29.808][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:29.810][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:29.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:29.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:29.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:29.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:29.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:29.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:29.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:29.827][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.831][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:29.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:29.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.838][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.839][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.842][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.844][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:29.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:29.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.849][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.850][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.852][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.854][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:29.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:29.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.859][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:29.860][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:29.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.863][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:29.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:29.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.875][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.876][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.879][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:29.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.938][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:29.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.940][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.942][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.951][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.956][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:29.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:29.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.964][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:29.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.973][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.975][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:29.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:29.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.985][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.986][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.989][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.991][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:29.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:29.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:29.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:29.996][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:29.997][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:29.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.000][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.054][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-03 19:26:30.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:30.084][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-03 19:26:30.085][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:30.087][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:30.092][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-03 19:26:30.093][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:30.095][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:30.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:30.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:30.121][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.123][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.126][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.134][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.135][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.138][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.139][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.145][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.146][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.149][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.150][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.155][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.156][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.165][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.166][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.169][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.176][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.177][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.179][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.181][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.182][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.184][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.185][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.190][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.191][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.194][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.200][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.202][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.204][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.206][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.211][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.212][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.215][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.217][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.222][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.224][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.226][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.228][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.291][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-03 19:26:30.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:30.326][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-03 19:26:30.328][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:30.330][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:30.334][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-03 19:26:30.336][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:30.337][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:30.339][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:30.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:30.360][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.362][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.365][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.372][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.374][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.377][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.384][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.388][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.395][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.399][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.408][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.410][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.417][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.419][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.422][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.423][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.425][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.428][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.429][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.435][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.439][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.447][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.451][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.459][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.460][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.463][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.482][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.484][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.487][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.489][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.554][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-03 19:26:30.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:30.585][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-03 19:26:30.586][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:30.588][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:30.591][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-03 19:26:30.593][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:30.594][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:30.596][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:30.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:30.612][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.615][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.622][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.623][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.625][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.626][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.631][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.632][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.634][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.636][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.641][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.643][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.663][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.666][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.672][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.673][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.675][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.677][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.679][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.680][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.682][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.687][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.688][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.690][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.697][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.699][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.701][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.707][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.709][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.711][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.718][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.719][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.722][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.778][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-03 19:26:30.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:30.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:30.807][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-03 19:26:30.816][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:30.818][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:30.823][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-03 19:26:30.824][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:30.825][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:30.827][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:30.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:30.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:30.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:30.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:30.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:30.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:30.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:30.843][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.844][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.847][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.852][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.854][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.856][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.857][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:30.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:30.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.862][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.865][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:30.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:30.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.871][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.872][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.875][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:30.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:30.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.882][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.883][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.885][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:30.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.891][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.892][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:30.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.895][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.896][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.897][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.901][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:30.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:30.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.905][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.906][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.908][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:30.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.915][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.919][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:30.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:30.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.926][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.927][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.932][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:30.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:30.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.936][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.937][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.940][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.942][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:30.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:30.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:30.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:30.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:30.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:30.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:30.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:31.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:31.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.006][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-03 19:26:31.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:31.050][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:31.054][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:31.057][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:31.058][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:31.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:31.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:31.765][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:31.768][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:31.771][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-03 19:26:31.772][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:31.776][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:31.779][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:31.781][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-03 19:26:31.783][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:31.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:31.806][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-03 19:26:31.808][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:31.809][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:31.814][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-03 19:26:31.815][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:31.816][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:31.817][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:31.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:31.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:31.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:31.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:31.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:31.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:31.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:31.860][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:31.862][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:31.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.864][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:31.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:31.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.871][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:31.872][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:31.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.875][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.876][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:31.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:31.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.881][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:31.882][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:31.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.885][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:31.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:31.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.892][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:31.894][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:31.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:31.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:31.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.902][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:31.904][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:31.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.906][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:31.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:31.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.912][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:31.913][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:31.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.915][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.917][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:31.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:31.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.923][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:31.924][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.926][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.928][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:31.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:31.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.934][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.935][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.938][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:31.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.945][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:31.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:31.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.948][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:31.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:31.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.954][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:31.955][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:31.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.957][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.959][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:31.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:31.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:31.966][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:31.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.968][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.970][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:31.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:31.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:31.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:31.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:31.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:31.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:31.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:31.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:31.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:31.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.036][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-03 19:26:32.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:32.093][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-03 19:26:32.094][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:32.096][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:32.101][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-03 19:26:32.102][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:32.104][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:32.105][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:32.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.118][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.124][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.125][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.127][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.134][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:32.136][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:32.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.137][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.139][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:32.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:32.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.143][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:32.144][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:32.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.146][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:32.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:32.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.152][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:32.159][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:32.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.162][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:32.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:32.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.170][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:32.172][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:32.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.174][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.175][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:32.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:32.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.179][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:32.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:32.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.182][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.183][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:32.185][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:32.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.187][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.188][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:32.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:32.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.192][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.195][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.201][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:32.203][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:32.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.205][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:32.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:32.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.213][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:32.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:32.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.217][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.218][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:32.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:32.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.223][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:32.224][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:32.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.226][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:32.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:32.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:32.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:32.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.276][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-03 19:26:32.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:32.324][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:32.328][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:32.331][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:32.333][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:32.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:32.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:32.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:32.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:32.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:32.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:32.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:32.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:32.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:32.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:32.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:32.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:33.056][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:33.059][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:33.062][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 19:26:33.065][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:33.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:33.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.781][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:33.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:33.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:33.798][biodb::testThat]
biodb.INFO [2025-09-03 19:26:33.800][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-03 19:26:33.801][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:33.802][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:33.806][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 19:26:33.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 19:26:33.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:33.849][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:33.853][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:33.855][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 19:26:33.856][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:33.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:33.887][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:33.890][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:33.893][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 19:26:33.912][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:33.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:33.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:33.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:33.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:33.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:33.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:33.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:33.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:33.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:33.992][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 19:26:33.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:33.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:33.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.019][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:34.020][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:34.021][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:34.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.027][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.032][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.033][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.034][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.038][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.039][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:34.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.063][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 19:26:34.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.092][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:34.094][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:34.095][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:34.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.100][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.102][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.105][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.108][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.129][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.131][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:34.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.159][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 19:26:34.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.183][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.183][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:34.184][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:34.185][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:34.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.188][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.190][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.196][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.198][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.200][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.203][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.204][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:34.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 19:26:34.223][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 19:26:34.223][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 19:26:34.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:34.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:34.346][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:34.349][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:34.352][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 19:26:34.353][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:34.356][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:34.358][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:34.361][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 19:26:34.362][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:34.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:34.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:34.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:34.480][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 19:26:34.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.534][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.535][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:34.536][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:34.537][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:34.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.542][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.546][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.548][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.553][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.554][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:34.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.571][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 19:26:34.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.644][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.645][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:34.646][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:34.647][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:34.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.654][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.659][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.660][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.675][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.679][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.680][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:34.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.696][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 19:26:34.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.734][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.736][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:34.737][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:34.739][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:34.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.746][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.751][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.753][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.757][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.758][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:34.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.773][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 19:26:34.774][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 19:26:34.776][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 19:26:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:34.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:34.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:34.797][biodb::testThat]
biodb.INFO [2025-09-03 19:26:34.798][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-03 19:26:34.799][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:34.801][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:34.804][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 19:26:34.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 19:26:34.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:34.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:34.843][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:34.846][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:34.848][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 19:26:34.849][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:34.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:34.890][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:34.895][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:34.897][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 19:26:34.898][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:34.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:34.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:34.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:34.953][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 19:26:34.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:34.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:34.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:34.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:34.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:34.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:34.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:34.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.978][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:34.979][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:34.981][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:34.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.987][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.988][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.990][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.992][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:34.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.995][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:34.995][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:34.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:34.999][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.000][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.017][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 19:26:35.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.029][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[2025-09-03 19:26:35.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.047][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:35.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:35.049][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:35.050][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.053][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.055][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.057][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.058][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.060][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.065][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.066][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.085][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 19:26:35.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.112][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:35.113][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:35.114][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:35.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.116][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.117][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.119][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.121][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.123][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.124][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.125][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.130][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.131][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.146][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 19:26:35.147][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 19:26:35.148][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 19:26:35.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:35.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:35.366][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:35.370][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:35.372][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 19:26:35.374][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:35.377][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:35.381][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:35.384][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 19:26:35.385][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:35.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:35.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:35.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:35.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:35.468][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 19:26:35.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.494][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:35.495][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:35.496][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:35.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.502][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.503][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.504][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.506][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.507][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.508][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.510][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.513][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.514][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.529][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 19:26:35.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.552][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.553][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:35.554][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:35.555][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:35.556][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.557][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.559][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.561][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.562][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.564][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.566][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.568][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.570][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.571][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.572][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.575][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.577][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.595][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 19:26:35.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.620][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.622][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:35.623][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:35.625][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:35.626][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.630][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.633][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.635][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.637][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.639][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.643][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.644][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.662][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 19:26:35.663][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 19:26:35.665][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 19:26:35.678][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:35.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:35.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:35.690][biodb::testThat]
biodb.INFO [2025-09-03 19:26:35.692][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-03 19:26:35.693][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:35.694][biodb::testThat]
biodb.TRACE[2025-09-03 19:26:35.698][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 19:26:35.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 19:26:35.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:35.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:35.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:35.754][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:35.757][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 19:26:35.758][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:35.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 19:26:35.788][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:35.791][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:35.793][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 19:26:35.795][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:35.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:35.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:35.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:35.859][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 19:26:35.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.881][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:35.882][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:35.883][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:35.883][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.886][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.888][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.890][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.896][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.899][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.901][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.902][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.916][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 19:26:35.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.940][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:35.942][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:35.943][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:35.944][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.948][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.953][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.954][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.955][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:35.956][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.958][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.959][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.960][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:35.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.975][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 19:26:35.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:35.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:35.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:35.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:35.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:35.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:35.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:35.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:35.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:35.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:35.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.000][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.001][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:36.002][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:36.003][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:36.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.007][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.011][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.012][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.013][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.014][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.015][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.017][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.018][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.033][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 19:26:36.035][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 19:26:36.036][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 19:26:36.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:36.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:36.106][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:36.110][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:36.111][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 19:26:36.112][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:36.116][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:36.119][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:36.121][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 19:26:36.122][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:36.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:36.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:36.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:36.210][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 19:26:36.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.234][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:36.236][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:36.237][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:36.238][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.239][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.241][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.243][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.244][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.245][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.247][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.249][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.250][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.256][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.257][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:36.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.270][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 19:26:36.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.285][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[2025-09-03 19:26:36.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.297][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:36.298][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:36.299][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:36.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.304][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.306][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.308][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.310][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.315][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.316][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:36.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.329][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 19:26:36.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.348][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.349][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 19:26:36.350][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 19:26:36.351][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 19:26:36.352][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.353][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.354][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.355][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.356][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.360][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.361][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.362][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 19:26:36.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.366][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.367][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 19:26:36.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.382][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 19:26:36.384][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 19:26:36.386][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 19:26:36.413][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:36.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 19:26:36.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:36.423][biodb::testThat]
biodb.INFO [2025-09-03 19:26:36.424][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-09-03 19:26:36.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:36.427][biodb::testThat]
biodb.DEBUG[2025-09-03 19:26:36.429][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-03 19:26:36.431][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:36.433][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:36.435][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-03 19:26:36.437][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:36.438][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:36.439][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:36.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.455][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.456][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.458][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.463][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:36.465][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:36.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.467][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.468][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:36.469][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:36.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.473][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:36.474][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:36.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.475][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.476][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.477][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.479][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.480][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.481][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.490][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.492][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:36.494][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:36.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.497][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.498][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.500][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.502][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.503][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:36.504][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:36.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.507][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.508][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:36.509][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:36.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.511][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.513][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:36.514][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:36.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.516][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:36.554][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-03 19:26:36.555][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-03 19:26:36.565][biodb::testThat]
biodb.INFO [2025-09-03 19:26:36.566][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-03 19:26:36.568][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:36.569][biodb::testThat]
biodb.DEBUG[2025-09-03 19:26:36.581][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-03 19:26:36.582][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-03 19:26:36.584][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-03 19:26:36.585][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:36.588][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-03 19:26:36.591][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-03 19:26:36.596][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-03 19:26:36.597][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:36.599][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-03 19:26:36.601][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:36.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.620][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.622][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.629][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:36.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:36.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.632][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.633][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:36.634][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:36.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.636][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.637][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:36.638][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:36.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.640][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.641][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.642][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.644][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.645][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.647][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.649][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.651][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:36.652][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:36.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.654][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.655][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.656][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.659][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.660][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:36.661][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:36.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.663][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.664][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:36.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:36.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.667][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.668][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:36.669][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:36.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.671][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:36.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.717][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.718][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.721][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.728][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:36.729][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:36.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.730][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.732][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:36.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:36.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.738][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:36.739][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:36.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.742][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:36.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:36.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.748][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:36.750][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:36.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.753][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:36.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:36.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.759][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.760][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.762][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.768][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.769][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.771][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.772][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.778][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:36.779][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:36.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.782][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.784][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:36.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:36.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.789][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.790][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.793][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.799][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:36.800][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:36.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.802][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:36.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:36.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.808][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:36.809][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:36.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.811][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.812][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:36.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:36.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.817][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:36.818][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:36.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.821][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.822][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:36.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:36.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:36.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:36.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:36.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:36.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:36.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:36.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:36.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:36.880][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.881][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.883][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.890][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:36.892][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:36.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.896][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:36.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:36.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.901][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:36.902][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:36.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.903][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.904][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:36.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:36.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.909][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:36.910][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:36.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.912][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:36.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:36.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.918][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.919][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.921][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:36.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.927][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.928][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:36.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.935][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:36.936][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:36.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.938][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.939][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:36.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:36.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.944][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.945][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.947][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:36.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.952][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:36.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:36.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.955][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:36.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:36.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.961][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:36.962][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:36.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.964][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.965][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:36.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:36.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.970][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:36.971][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:36.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.972][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:36.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:36.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:36.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:36.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:36.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:36.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:37.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:37.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:37.057][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-03 19:26:37.058][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-03 19:26:37.059][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-03 19:26:37.078][biodb::testThat]
biodb.INFO [2025-09-03 19:26:37.080][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-09-03 19:26:37.082][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:37.083][biodb::testThat]
biodb.INFO [2025-09-03 19:26:37.116][biodb::testThat]
biodb.INFO [2025-09-03 19:26:37.117][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-09-03 19:26:37.118][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:37.119][biodb::testThat]
biodb.INFO [2025-09-03 19:26:37.129][biodb::testThat]
biodb.INFO [2025-09-03 19:26:37.131][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-09-03 19:26:37.132][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:37.133][biodb::testThat]
sched.DEBUG[2025-09-03 19:26:37.136][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:37.139][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:37.145][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-03 19:26:37.146][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-03 19:26:37.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:37.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:37.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.166][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:37.167][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:37.168][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:37.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:37.169][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 19:26:37.171][biodb::testThat]
biodb.INFO [2025-09-03 19:26:37.172][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-03 19:26:37.173][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:37.174][biodb::testThat]
biodb.ERROR[2025-09-03 19:26:37.191][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-03 19:26:37.213][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-03 19:26:37.237][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 19:26:37.238][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 19:26:37.239][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 19:26:37.240][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.243][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.245][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 19:26:37.259][biodb::testContext]
biodb.INFO [2025-09-03 19:26:37.260][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:37.262][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-03 19:26:37.263][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:37.264][biodb::testContext]
biodb.INFO [2025-09-03 19:26:37.267][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:37.269][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:37.273][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:37.275][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 19:26:37.276][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 19:26:37.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.282][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 19:26:37.283][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 19:26:37.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.286][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 19:26:37.287][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 19:26:37.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.292][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 19:26:37.293][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 19:26:37.294][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 19:26:37.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.298][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 19:26:37.300][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 19:26:37.301][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 19:26:37.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.304][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[2025-09-03 19:26:37.305][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 19:26:37.306][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 19:26:37.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.310][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 19:26:37.311][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 19:26:37.312][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 19:26:37.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.317][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 19:26:37.318][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 19:26:37.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.322][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 19:26:37.323][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 19:26:37.324][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 19:26:37.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.327][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:37.329][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 19:26:37.330][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 19:26:37.331][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 19:26:37.332][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 19:26:37.333][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 19:26:37.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.338][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 19:26:37.339][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 19:26:37.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.342][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 19:26:37.343][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 19:26:37.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.347][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 19:26:37.349][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 19:26:37.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.353][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 19:26:37.355][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 19:26:37.356][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 19:26:37.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.360][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:37.361][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 19:26:37.389][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 19:26:37.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.393][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 19:26:37.394][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 19:26:37.395][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 19:26:37.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.400][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 19:26:37.402][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.403][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-03 19:26:37.404][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.406][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:37.407][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.408][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.408][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.409][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.410][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:37.411][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:37.412][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.413][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 19:26:37.414][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:37.416][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.417][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.419][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:37.419][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:37.419][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:37.419][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:37.419][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:37.420][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:37.421][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.423][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:37.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.425][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.426][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.427][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.428][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:37.430][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:37.431][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.432][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.433][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 19:26:37.435][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.437][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:37.438][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.439][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:37.440][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.441][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.442][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.443][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.445][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:37.446][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:37.447][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.448][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 19:26:37.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:37.450][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.452][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.453][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:37.453][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:37.453][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:37.453][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:37.453][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:37.454][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:37.455][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.457][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:37.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.461][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.462][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.463][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:37.464][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:37.465][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.466][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.467][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 19:26:37.468][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.469][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-03 19:26:37.470][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.471][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:37.472][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.473][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.475][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.476][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.477][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:37.478][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:37.479][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.481][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 19:26:37.482][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:37.483][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.485][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.486][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.488][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:37.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.491][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:37.493][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.494][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.495][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.496][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.498][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:37.499][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:37.500][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.501][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.503][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 19:26:37.505][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.507][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:37.508][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.509][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:37.511][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.512][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.513][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.515][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.516][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:37.517][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:37.519][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.520][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 19:26:37.521][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:37.522][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.524][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.525][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.526][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:37.527][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.528][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.529][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:37.530][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.531][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.532][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.533][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.535][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:37.536][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:37.537][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.538][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:37.539][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:37.540][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.546][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[2025-09-03 19:26:37.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.551][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[2025-09-03 19:26:37.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.556][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[2025-09-03 19:26:37.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.562][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[2025-09-03 19:26:37.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.607][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[2025-09-03 19:26:37.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.612][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[2025-09-03 19:26:37.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.617][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[2025-09-03 19:26:37.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.626][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[2025-09-03 19:26:37.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.631][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 19:26:37.632][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 19:26:37.634][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 19:26:37.635][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 19:26:37.636][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:37.638][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 19:26:37.640][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:37.641][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:37.643][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 19:26:37.644][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 19:26:37.645][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:37.647][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 19:26:37.648][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:37.649][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:37.651][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 19:26:37.653][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 19:26:37.654][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 19:26:37.655][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 19:26:37.657][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:37.659][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 19:26:37.660][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 19:26:37.662][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 19:26:37.664][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 19:26:37.666][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 19:26:37.667][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 19:26:37.669][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 19:26:37.670][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 19:26:37.672][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 19:26:37.673][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 19:26:37.675][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 19:26:37.677][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 19:26:37.679][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 19:26:37.681][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 19:26:37.682][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 19:26:37.684][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 19:26:37.686][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 19:26:37.687][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 19:26:37.688][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 19:26:37.690][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 19:26:37.691][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 19:26:37.693][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 19:26:37.694][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 19:26:37.696][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 19:26:37.697][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 19:26:37.699][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 19:26:37.701][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 19:26:37.703][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 19:26:37.705][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 19:26:37.706][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 19:26:37.708][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 19:26:37.710][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 19:26:37.712][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 19:26:37.713][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 19:26:37.714][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 19:26:37.716][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 19:26:37.717][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 19:26:37.718][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 19:26:37.720][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 19:26:37.721][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 19:26:37.723][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 19:26:37.724][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 19:26:37.725][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 19:26:37.726][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 19:26:37.727][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 19:26:37.729][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 19:26:37.731][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 19:26:37.732][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:37.734][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:37.736][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 19:26:37.737][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 19:26:37.739][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 19:26:37.741][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 19:26:37.742][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 19:26:37.744][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 19:26:37.746][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 19:26:37.747][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 19:26:37.749][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 19:26:37.750][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 19:26:37.752][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 19:26:37.754][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 19:26:37.755][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 19:26:37.757][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 19:26:37.758][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 19:26:37.760][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 19:26:37.762][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:37.763][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:37.764][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.765][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.766][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.DEBUG[2025-09-03 19:26:37.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.782][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.DEBUG[2025-09-03 19:26:37.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.827][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.DEBUG[2025-09-03 19:26:37.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.834][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.DEBUG[2025-09-03 19:26:37.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:37.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:37.886][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:37.889][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 19:26:37.892][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.894][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.895][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.896][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:37.897][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.899][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.900][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.902][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 19:26:37.903][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 19:26:37.905][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:37.906][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.908][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 19:26:37.909][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 19:26:37.910][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 19:26:37.912][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:37.913][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:37.913][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:37.913][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:37.914][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 19:26:37.916][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.917][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.918][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:37.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:37.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:37.921][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:37.922][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 19:26:37.922][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 19:26:37.923][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:37.924][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:37.925][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:37.926][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 19:26:37.926][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 19:26:37.928][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:37.929][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:37.931][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 19:26:37.932][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:37.934][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:37.936][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:37.947][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 19:26:37.954][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 19:26:37.956][biodb::testThat]
biodb.INFO [2025-09-03 19:26:37.957][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-09-03 19:26:37.959][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:37.960][biodb::testThat]
sched.DEBUG[2025-09-03 19:26:37.963][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 19:26:37.966][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:37.971][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 19:26:37.972][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:37.975][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 [2025-09-03 19:26:37.978][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:37.980][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 19:26:37.981][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:37.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:37.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:37.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:37.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:37.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:37.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:37.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:37.997][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 [2025-09-03 19:26:38.000][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.003][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 19:26:38.004][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.018][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[2025-09-03 19:26:38.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:38.053][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 [2025-09-03 19:26:38.057][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.059][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 19:26:38.061][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:38.076][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 [2025-09-03 19:26:38.079][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.080][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 19:26:38.081][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.108][FUN] Functions in observer 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[2025-09-03 19:26:38.113][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 [2025-09-03 19:26:38.116][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.118][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 19:26:38.119][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:38.135][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 [2025-09-03 19:26:38.138][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.141][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 19:26:38.142][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 19:26:38.155][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 [2025-09-03 19:26:38.158][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.161][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-03 19:26:38.162][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 19:26:38.185][biodb::testThat]
biodb.INFO [2025-09-03 19:26:38.186][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-09-03 19:26:38.187][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:38.188][biodb::testThat]
sched.DEBUG[2025-09-03 19:26:38.192][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 [2025-09-03 19:26:38.195][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.198][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-03 19:26:38.199][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.212][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".
sched.DEBUG[2025-09-03 19:26:38.216][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 [2025-09-03 19:26:38.219][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.229][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-03 19:26:38.231][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:38.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:38.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.245][FUN] Functions in observer BiodbConfig: [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 [2025-09-03 19:26:38.250][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 19:26:38.251][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 19:26:38.252][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 19:26:38.253][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.255][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.257][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.258][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.INFO [2025-09-03 19:26:38.262][biodb::testContext]
biodb.INFO [2025-09-03 19:26:38.263][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:38.264][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-03 19:26:38.265][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:38.267][biodb::testContext]
biodb.INFO [2025-09-03 19:26:38.269][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:38.271][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:38.277][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:38.278][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 19:26:38.280][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 19:26:38.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.283][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 19:26:38.284][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 19:26:38.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.287][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 19:26:38.288][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 19:26:38.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.292][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 19:26:38.293][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 19:26:38.294][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 19:26:38.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.297][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 19:26:38.298][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 19:26:38.300][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 19:26:38.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.304][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 19:26:38.305][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 19:26:38.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.307][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[2025-09-03 19:26:38.309][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 19:26:38.310][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 19:26:38.311][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 19:26:38.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.315][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 19:26:38.317][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 19:26:38.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.320][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 19:26:38.321][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 19:26:38.322][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 19:26:38.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.327][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:38.328][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 19:26:38.329][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 19:26:38.330][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 19:26:38.331][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 19:26:38.333][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 19:26:38.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.336][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 19:26:38.338][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 19:26:38.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.342][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 19:26:38.344][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 19:26:38.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.348][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 19:26:38.349][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 19:26:38.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.353][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 19:26:38.355][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 19:26:38.356][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 19:26:38.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.361][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:38.362][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 19:26:38.384][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 19:26:38.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.390][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 19:26:38.391][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 19:26:38.393][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 19:26:38.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.397][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 19:26:38.398][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.399][self$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[2025-09-03 19:26:38.401][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.402][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:38.403][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.404][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.405][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.407][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.408][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:38.409][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:38.410][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.412][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 19:26:38.413][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:38.414][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.415][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.416][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:38.416][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:38.416][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:38.416][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:38.416][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:38.418][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:38.419][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.420][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.421][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:38.423][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.424][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.425][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.427][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.428][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:38.428][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:38.429][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.430][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.432][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 19:26:38.434][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.436][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:38.437][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.438][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:38.440][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.441][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.442][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.444][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.445][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:38.446][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:38.448][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.449][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 19:26:38.450][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:38.451][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.452][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.453][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:38.453][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:38.453][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:38.453][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:38.453][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:38.454][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:38.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.457][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:38.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.460][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.461][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.463][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:38.464][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:38.465][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.467][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.468][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 19:26:38.471][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.472][self$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[2025-09-03 19:26:38.473][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.474][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:38.475][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.476][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.476][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.478][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.479][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:38.480][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:38.481][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.482][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 19:26:38.483][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:38.484][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.485][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.486][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.487][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:38.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.489][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:38.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.493][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.494][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.495][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:38.496][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:38.497][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.498][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.499][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 19:26:38.502][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.503][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:38.505][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.506][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:38.507][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.508][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.509][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.510][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.511][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:38.512][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:38.513][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.514][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 19:26:38.515][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:38.516][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.517][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.519][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.520][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:38.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.523][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:38.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.526][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.527][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.529][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:38.530][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:38.531][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.533][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:38.535][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:38.536][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.553][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[2025-09-03 19:26:38.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.564][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[2025-09-03 19:26:38.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.569][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[2025-09-03 19:26:38.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.611][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[2025-09-03 19:26:38.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.617][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[2025-09-03 19:26:38.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.629][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 19:26:38.631][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 19:26:38.632][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 19:26:38.634][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 19:26:38.636][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:38.638][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 19:26:38.639][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:38.641][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:38.642][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 19:26:38.644][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 19:26:38.646][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:38.647][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 19:26:38.649][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:38.650][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:38.651][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 19:26:38.653][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 19:26:38.655][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 19:26:38.656][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 19:26:38.657][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:38.658][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 19:26:38.660][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 19:26:38.662][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 19:26:38.664][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 19:26:38.665][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 19:26:38.667][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 19:26:38.669][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 19:26:38.670][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 19:26:38.672][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 19:26:38.673][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 19:26:38.674][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 19:26:38.676][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 19:26:38.678][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 19:26:38.679][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 19:26:38.681][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 19:26:38.682][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 19:26:38.684][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 19:26:38.686][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 19:26:38.688][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 19:26:38.690][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 19:26:38.692][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 19:26:38.693][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 19:26:38.696][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 19:26:38.697][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 19:26:38.698][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 19:26:38.700][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 19:26:38.702][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 19:26:38.703][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 19:26:38.705][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 19:26:38.706][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 19:26:38.708][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 19:26:38.710][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 19:26:38.712][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 19:26:38.714][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 19:26:38.715][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 19:26:38.717][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 19:26:38.719][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 19:26:38.720][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 19:26:38.722][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 19:26:38.724][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 19:26:38.725][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 19:26:38.727][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 19:26:38.729][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 19:26:38.730][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 19:26:38.732][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 19:26:38.733][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 19:26:38.735][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 19:26:38.736][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:38.738][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:38.740][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 19:26:38.741][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 19:26:38.742][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 19:26:38.744][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 19:26:38.746][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 19:26:38.748][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 19:26:38.750][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 19:26:38.752][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 19:26:38.754][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 19:26:38.756][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 19:26:38.758][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 19:26:38.760][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 19:26:38.761][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 19:26:38.763][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 19:26:38.765][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 19:26:38.767][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 19:26:38.769][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:38.770][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:38.771][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.773][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.781][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.DEBUG[2025-09-03 19:26:38.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.827][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.DEBUG[2025-09-03 19:26:38.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.844][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.DEBUG[2025-09-03 19:26:38.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:38.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:38.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:38.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:38.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:38.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:38.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:38.901][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:38.903][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 19:26:38.905][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.906][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.908][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:38.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.911][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.912][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.913][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 19:26:38.914][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 19:26:38.916][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:38.917][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.918][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 19:26:38.920][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 19:26:38.921][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 19:26:38.922][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:38.923][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:38.923][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:38.923][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:38.925][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 19:26:38.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.928][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:38.929][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:38.930][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:38.932][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:38.933][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 19:26:38.933][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 19:26:38.935][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:38.936][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:38.938][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:38.940][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 19:26:38.940][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 19:26:38.942][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:38.951][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:38.954][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 19:26:38.956][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:38.959][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:38.961][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:38.965][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 19:26:38.973][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 19:26:38.975][biodb::testThat]
biodb.INFO [2025-09-03 19:26:38.976][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-03 19:26:38.977][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:38.978][biodb::testThat]
sched.DEBUG[2025-09-03 19:26:38.981][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 19:26:38.984][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:38.990][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 19:26:38.991][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:38.995][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-03 19:26:38.999][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:39.002][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-03 19:26:39.003][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-03 19:26:39.013][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 19:26:39.015][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 19:26:39.016][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 19:26:39.017][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.020][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.022][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 19:26:39.027][biodb::testContext]
biodb.INFO [2025-09-03 19:26:39.028][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:39.030][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-03 19:26:39.031][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 19:26:39.032][biodb::testContext]
biodb.INFO [2025-09-03 19:26:39.035][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:39.037][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:39.043][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:39.044][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 19:26:39.046][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 19:26:39.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.050][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 19:26:39.052][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 19:26:39.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.057][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 19:26:39.058][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 19:26:39.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.063][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 19:26:39.065][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 19:26:39.066][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 19:26:39.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.069][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 19:26:39.071][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 19:26:39.072][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 19:26:39.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.076][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 19:26:39.077][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 19:26:39.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.082][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 19:26:39.083][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 19:26:39.084][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 19:26:39.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.088][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 19:26:39.089][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 19:26:39.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.093][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 19:26:39.095][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 19:26:39.096][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 19:26:39.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.100][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[2025-09-03 19:26:39.101][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:39.103][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 19:26:39.104][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 19:26:39.105][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 19:26:39.106][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 19:26:39.108][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 19:26:39.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.111][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 19:26:39.112][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 19:26:39.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.117][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 19:26:39.118][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 19:26:39.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.123][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 19:26:39.124][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 19:26:39.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.129][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 19:26:39.130][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 19:26:39.132][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 19:26:39.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.136][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 19:26:39.138][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 19:26:39.162][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 19:26:39.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.168][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 19:26:39.169][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 19:26:39.170][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 19:26:39.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.175][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 19:26:39.177][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.179][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-03 19:26:39.180][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.182][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:39.183][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.185][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.186][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.187][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.189][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:39.190][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:39.191][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.193][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 19:26:39.194][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:39.195][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.197][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.198][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:39.198][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:39.198][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:39.198][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:39.198][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:39.199][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:39.201][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.202][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.203][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:39.204][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.206][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.207][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.208][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.210][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:39.211][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:39.212][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.214][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.215][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 19:26:39.218][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.219][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:39.221][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.222][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:39.223][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.224][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.226][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.227][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.228][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:39.229][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:39.231][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.232][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 19:26:39.233][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:39.235][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.236][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.238][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:39.238][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:39.238][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:39.238][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 19:26:39.238][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 19:26:39.239][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:39.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.243][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:39.244][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.247][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.248][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.249][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:39.250][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:39.252][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.253][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.255][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 19:26:39.257][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.259][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-03 19:26:39.260][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.261][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:39.263][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.264][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.265][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.267][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.267][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 19:26:39.269][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:39.270][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.271][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 19:26:39.273][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:39.274][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.276][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.277][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.278][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:39.279][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.280][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.281][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:39.282][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.283][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.284][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.285][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.287][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:39.288][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:39.289][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.290][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.292][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 19:26:39.294][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.295][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 19:26:39.297][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.298][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:39.299][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.301][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.302][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.304][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.305][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 19:26:39.306][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:39.308][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.309][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 19:26:39.311][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:39.312][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.313][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.314][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.316][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 19:26:39.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.318][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.319][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:39.321][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.322][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.323][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.324][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.325][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:39.326][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:39.327][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.328][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 19:26:39.330][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:39.331][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.380][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.DEBUG[2025-09-03 19:26:39.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.430][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 19:26:39.432][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 19:26:39.434][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 19:26:39.435][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 19:26:39.437][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:39.439][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 19:26:39.440][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:39.442][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:39.444][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 19:26:39.446][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 19:26:39.448][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:39.449][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 19:26:39.451][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 19:26:39.453][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 19:26:39.455][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 19:26:39.456][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 19:26:39.458][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 19:26:39.460][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 19:26:39.462][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:39.463][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 19:26:39.465][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 19:26:39.467][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 19:26:39.469][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 19:26:39.471][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 19:26:39.473][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 19:26:39.475][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 19:26:39.477][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 19:26:39.478][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 19:26:39.480][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 19:26:39.482][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 19:26:39.484][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 19:26:39.485][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 19:26:39.487][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 19:26:39.488][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 19:26:39.490][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 19:26:39.492][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 19:26:39.494][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 19:26:39.496][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 19:26:39.498][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 19:26:39.499][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 19:26:39.501][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 19:26:39.503][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 19:26:39.504][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 19:26:39.506][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 19:26:39.508][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 19:26:39.510][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 19:26:39.511][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 19:26:39.513][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 19:26:39.515][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 19:26:39.517][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 19:26:39.519][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 19:26:39.521][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 19:26:39.522][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 19:26:39.524][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 19:26:39.526][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 19:26:39.528][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 19:26:39.530][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 19:26:39.531][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 19:26:39.533][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 19:26:39.535][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 19:26:39.537][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 19:26:39.539][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 19:26:39.540][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 19:26:39.542][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 19:26:39.544][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 19:26:39.546][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 19:26:39.549][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:39.550][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:39.553][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 19:26:39.555][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 19:26:39.556][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 19:26:39.558][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 19:26:39.559][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 19:26:39.561][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 19:26:39.563][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 19:26:39.565][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 19:26:39.566][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 19:26:39.568][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 19:26:39.570][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 19:26:39.572][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 19:26:39.573][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 19:26:39.575][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 19:26:39.576][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 19:26:39.578][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 19:26:39.580][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 19:26:39.582][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 19:26:39.583][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.585][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.611][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[2025-09-03 19:26:39.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.668][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[2025-09-03 19:26:39.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.675][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[2025-09-03 19:26:39.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.683][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[2025-09-03 19:26:39.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 19:26:39.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 19:26:39.716][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 19:26:39.718][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 19:26:39.720][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.721][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.731][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.733][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 19:26:39.734][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.735][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.737][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.738][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 19:26:39.739][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 19:26:39.741][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 19:26:39.742][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.743][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 19:26:39.745][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 19:26:39.746][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 19:26:39.748][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 19:26:39.749][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 19:26:39.749][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 19:26:39.749][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 19:26:39.751][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 19:26:39.752][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.753][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.754][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 19:26:39.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 19:26:39.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 19:26:39.758][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 19:26:39.759][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 19:26:39.759][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 19:26:39.761][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 19:26:39.762][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 19:26:39.763][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 19:26:39.764][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 19:26:39.764][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 19:26:39.766][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 19:26:39.768][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 19:26:39.770][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 19:26:39.772][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 19:26:39.774][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 19:26:39.776][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 19:26:39.780][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 19:26:39.788][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 19:26:39.790][biodb::testThat]
biodb.INFO [2025-09-03 19:26:39.791][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-03 19:26:39.792][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 19:26:39.794][biodb::testThat]
sched.DEBUG[2025-09-03 19:26:39.797][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 19:26:39.799][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:39.804][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 19:26:39.806][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 19:26:39.811][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 [2025-09-03 19:26:39.814][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 19:26:39.817][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-03 19:26:39.819][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 19:26:39.824][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-03 19:26:39.832][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 19:26:39.834][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 19:26:39.843][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-03 19:26:39.845][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 19:26:39.847][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 19:26:39.849][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 19:26:39.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 19:26:39.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:39.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:39.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:39.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:39.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:39.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 19:26:39.870][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:39.871][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:39.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.874][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:39.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:39.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.882][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:39.883][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:39.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.886][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.888][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 19:26:39.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 19:26:39.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.893][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:39.895][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:39.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 19:26:39.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 19:26:39.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 19:26:39.907][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 19:26:39.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.909][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.911][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 19:26:39.912][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 19:26:39.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.915][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.916][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:39.917][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:39.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.920][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.922][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:39.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 19:26:39.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.927][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:39.929][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:39.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.931][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 19:26:39.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 19:26:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.937][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:39.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:39.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.941][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 19:26:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.948][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:39.949][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:39.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.951][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 19:26:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 19:26:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.958][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:39.960][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:39.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.962][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 19:26:39.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 19:26:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.970][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:39.972][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:39.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.974][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.976][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 19:26:39.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 19:26:39.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:39.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:39.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:39.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:39.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:39.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:39.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:39.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:39.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 19:26:39.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 19:26:39.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:40.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:40.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:40.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:40.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:40.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:40.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:40.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:40.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:40.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:40.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:40.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:40.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:40.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:40.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:40.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:40.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:40.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:40.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:40.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:40.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:40.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 19:26:40.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 19:26:40.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 19:26:40.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 19:26:40.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 19:26:40.029][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-03 19:26:40.036][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 19:26:40.037][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 19:26:40.039][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 19:26:40.040][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 19:26:40.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 19:26:40.043][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 19:26:40.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 19:26:40.045][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 19:26:40.046][FUN] Functions in observer 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 
 18.640   1.093  22.299

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.6211.1783.919
ChebiEntry0.3220.0200.355